Sibelia is useful in finding: (1) shared regions, (2) regions that present in one group of genomes but not in others, (3) rearrangements that transform one genome to other genomes.

More at http://bioinf.spbau.ru/sibelia

Sibelia docs http://gensoft.pasteur.fr/docs/Sibelia/3.0.7/SIBELIA.md

Address of the bookmark: https://github.com/bioinf/Sibelia

Department of Genetics

University of Delhi South Campus

NEW DELHI – 110 021

WALK-IN-INTERVIEW FOR THE TEMPORARY POSITIONS OF RESEACH SCIENTIT & LAB / FIELD ATTENDANT

1 Research Scientist (RS) – 3

DBT, Ph. D.

Experience on DNA Markers, plant genome mapping and bioinformatics

Salary: 60,000 (Consolidated) + 5% annual increment

Date and time: 25.06.2015 at 10:30 AM

These temporary positions have been sanctioned in a DBT funded project for the Phase II on ‘Centre of Excellence on genome mapping and molecular breeding of Brassicas.’

The applicants are requested to register their names on the day of interview in the First Floor, Biotech Centre, Centre for Genetic Manipulation of Crop Plants, Department of Genetics before the stipulated time for the interview. Only the registered eligible candidates will be interviewed on the day in the Committee Room.

Applicants are requested to bring all related documents, in original and a set of photocopy, for verification.

No TA/DA will be paid for attending the interview.

Advertisement:

www.du.ac.in/du/index.php?mact=News,cntnt01,detail,0&cntnt01articleid=5492&cntnt01returnid=83

Address of the bookmark: https://github.com/ventoy/Ventoy

(ABT/DIC/01/2014 (No. AAU/ABT/DIT/Advt. 01/2015/111 Dtd. 19-05-2015)

Walk in interview for the following position will be held on 6th June, 2015 at 10.00AM in the Office Chamber of the undersigned. Candidates may appear for the interview with bio-data, reprints / publication / thesis etc and passport size photographs, original and attested copies of all testimonials etc, which must be presented at the time of interview. The applicants may submit their resume in advance tomkmodi@aau.ac.in.

Research Associate

Ph.D. in Biotechnology/ Bioinformatics. Or

Masters degree in Biotechnology/Bioinformatics with minimum 3(three) years research experience

Desirable : Experience in Bioinformatics as evidenced from published research

Rs 36,000+HRA for the 1st two years and 38,000+HRA for the 3rd year.

Senior Research Fellow

Master Degree in Biotechnology/ Bioinformatics. With 2 (two) years Experience in Bioinformatics as evidenced from Course work/ Diploma/Published research

Rs 28,000+HRA for NET qualified candidate/Professional degree holder

Rs 18,000+HRA for non-NET qualified general degree holder

Junior Research Fellow

Master Degree in Biotechnology/ Bioinformatics/Computer Science/Computer Application

Desirable: Experience in Bioinformatics as evident from Course work/ Diploma/Published research

Rs 25,000+HRA for NET qualified candidate/Professional degree holder

Rs 16,000+HRA for non-NET qualified general degree holder

Note: Term and conditions will be as per the DBT, Govt of India guidelines.

Advertisement: http://14.139.222.145/classified/biotech46.html

https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae679/7730539?login=true

Address of the bookmark: https://github.com/Zhenlisme/heliano/

Applications are invited for the post of Senior Research Fellow- SRF (1) and Junior Research Fellow- JRF (1) to be appointed in a SERB-funded major research project entitled “Biochemical and functional properties of Synechocystis Glutathione S-transferase(s)” sanctioned to Dr. Timir Tripathi, Molecular and Structural Biophysics Laboratory, Department of Biochemistry, NEHU, Shillong.

Essential Qualifications: For both positions M.Sc. or equivalent with a good academic record is a prerequisite.

For Project-SRF, experience in bioinformatics/computational biology is required, which should be evident by atleast one good publication.

For JRF position, freshers can also apply.

Stipend: As per SERB norms.

Interested students can email their detailed bio-data including mobile number and recent photograph to msb.biochem@gmail.com, latest by 20.06.15. The hard copy is not required. The date of interview will be informed after primary scrutiny of the applications. No TA/DA will be paid if called for interview. For details of the research work of the PI’s group kindly visit www.ttripathi.webs.com

Advertisement: http://www.nehu.ac.in/Advertisements/BiochemSERB_Advt_020615.pdf

conda is a tool for managing and deploying applications, environments and packages.

options:
-h, --help Show this help message and exit.
-v, --verbose Can be used multiple times. Once for detailed output, twice for INFO logging, thrice for DEBUG logging, four times for TRACE logging.
--no-plugins Disable all plugins that are not built into conda.
-V, --version Show the conda version number and exit.

commands:
The following built-in and plugins subcommands are available.

COMMAND
activate Activate a conda environment.
clean Remove unused packages and caches.
commands List all available conda subcommands (including those from plugins). Generally only used by tab-completion.
compare Compare packages between conda environments.
config Modify configuration values in .condarc.
create Create a new conda environment from a list of specified packages.
deactivate Deactivate the current active conda environment.
doctor Display a health report for your environment.
env Create and manage conda environments.
export Export a given environment
info Display information about current conda install.
init Initialize conda for shell interaction.
install Install a list of packages into a specified conda environment.
list List installed packages in a conda environment.
notices Retrieve latest channel notifications.
package Create low-level conda packages. (EXPERIMENTAL)
remove (uninstall) Remove a list of packages from a specified conda environment.
rename Rename an existing environment.
repoquery Advanced search for repodata.
run Run an executable in a conda environment.
search Search for packages and display associated information using the MatchSpec format.
update (upgrade) Update conda packages to the latest compatible version.
(base) hp@hp-HP-Z2-Tower-G9-Workstation-Desktop-PC:~/jitendraTEST$ conda create -n jitENV
Retrieving notices: done
Channels:
- ursky
- bioconda
- conda-forge
Platform: linux-64
Collecting package metadata (repodata.json): done
Solving environment: done

==> WARNING: A newer version of conda exists. <==
current version: 25.7.0
latest version: 26.5.0

Please update conda by running

$ conda update -n base -c conda-forge conda

## Package Plan ##

environment location: /home/hp/miniforge3/envs/jitENV

Proceed ([y]/n)? y

Downloading and Extracting Packages:

Preparing transaction: done
Verifying transaction: done
Executing transaction: done
#
# To activate this environment, use
#
# $ conda activate jitENV
#
# To deactivate an active environment, use
#
# $ conda deactivate

(base) hp@hp-HP-Z2-Tower-G9-Workstation-Desktop-PC:~/jitendraTEST$ conda activate jitENV
(jitENV) hp@hp-HP-Z2-Tower-G9-Workstation-Desktop-PC:~/jitendraTEST$ conda install conda-forge::mamba
Channels:
- ursky
- bioconda
- conda-forge
Platform: linux-64
Collecting package metadata (repodata.json): done
Solving environment: done

==> WARNING: A newer version of conda exists. <==
current version: 25.7.0
latest version: 26.5.0

Please update conda by running

$ conda update -n base -c conda-forge conda

## Package Plan ##

environment location: /home/hp/miniforge3/envs/jitENV

added / updated specs:
- conda-forge::mamba

The following packages will be downloaded:

package | build
---------------------------|-----------------
ca-certificates-2026.5.20 | hbd8a1cb_0 127 KB conda-forge
cpp-expected-1.3.1 | h171cf75_0 24 KB conda-forge
fmt-12.1.0 | hff5e90c_0 193 KB conda-forge
libarchive-3.8.7 | gpl_hc2c16d8_101 869 KB conda-forge
libcurl-8.20.0 | hcf29cc6_0 458 KB conda-forge
libgcc-15.2.0 | he0feb66_19 1017 KB conda-forge
libgcc-ng-15.2.0 | h69a702a_19 27 KB conda-forge
libgomp-15.2.0 | he0feb66_19 590 KB conda-forge
libmamba-2.6.2 | hd28c85e_0 2.7 MB conda-forge
libmsgpack-c-6.1.0 | h54a6638_6 39 KB conda-forge
libsolv-0.7.38 | h9463b59_0 509 KB conda-forge
libstdcxx-15.2.0 | h934c35e_19 5.6 MB conda-forge
libxml2-2.15.3 | h49c6c72_0 46 KB conda-forge
libxml2-16-2.15.3 | hca6bf5a_0 547 KB conda-forge
mamba-2.6.2 | hce6dcdd_0 553 KB conda-forge
ncurses-6.6 | hdb14827_0 897 KB conda-forge
nlohmann_json-abi-3.12.0 | h0f90c79_1 4 KB conda-forge
reproc-14.2.7.post0 | hb03c661_1 35 KB conda-forge
reproc-cpp-14.2.7.post0 | hecca717_1 26 KB conda-forge
simdjson-4.6.4 | hb700be7_0 310 KB conda-forge
spdlog-1.17.0 | hab81395_1 192 KB conda-forge
------------------------------------------------------------
Total: 14.6 MB

The following NEW packages will be INSTALLED:

_openmp_mutex conda-forge/linux-64::_openmp_mutex-4.5-20_gnu
bzip2 conda-forge/linux-64::bzip2-1.0.8-hda65f42_9
c-ares conda-forge/linux-64::c-ares-1.34.6-hb03c661_0
ca-certificates conda-forge/noarch::ca-certificates-2026.5.20-hbd8a1cb_0
cpp-expected conda-forge/linux-64::cpp-expected-1.3.1-h171cf75_0
fmt conda-forge/linux-64::fmt-12.1.0-hff5e90c_0
icu conda-forge/linux-64::icu-78.3-h33c6efd_0
keyutils conda-forge/linux-64::keyutils-1.6.3-hb9d3cd8_0
krb5 conda-forge/linux-64::krb5-1.22.2-ha1258a1_0
libarchive conda-forge/linux-64::libarchive-3.8.7-gpl_hc2c16d8_101
libcurl conda-forge/linux-64::libcurl-8.20.0-hcf29cc6_0
libedit conda-forge/linux-64::libedit-3.1.20250104-pl5321h7949ede_0
libev conda-forge/linux-64::libev-4.33-hd590300_2
libgcc conda-forge/linux-64::libgcc-15.2.0-he0feb66_19
libgcc-ng conda-forge/linux-64::libgcc-ng-15.2.0-h69a702a_19
libgomp conda-forge/linux-64::libgomp-15.2.0-he0feb66_19
libiconv conda-forge/linux-64::libiconv-1.18-h3b78370_2
liblzma conda-forge/linux-64::liblzma-5.8.3-hb03c661_0
libmamba conda-forge/linux-64::libmamba-2.6.2-hd28c85e_0
libmsgpack-c conda-forge/linux-64::libmsgpack-c-6.1.0-h54a6638_6
libnghttp2 conda-forge/linux-64::libnghttp2-1.68.1-h877daf1_0
libsolv conda-forge/linux-64::libsolv-0.7.38-h9463b59_0
libssh2 conda-forge/linux-64::libssh2-1.11.1-hcf80075_0
libstdcxx conda-forge/linux-64::libstdcxx-15.2.0-h934c35e_19
libxml2 conda-forge/linux-64::libxml2-2.15.3-h49c6c72_0
libxml2-16 conda-forge/linux-64::libxml2-16-2.15.3-hca6bf5a_0
libzlib conda-forge/linux-64::libzlib-1.3.2-h25fd6f3_2
lz4-c conda-forge/linux-64::lz4-c-1.10.0-h5888daf_1
lzo conda-forge/linux-64::lzo-2.10-h280c20c_1002
mamba conda-forge/linux-64::mamba-2.6.2-hce6dcdd_0
ncurses conda-forge/linux-64::ncurses-6.6-hdb14827_0
nlohmann_json-abi conda-forge/noarch::nlohmann_json-abi-3.12.0-h0f90c79_1
openssl conda-forge/linux-64::openssl-3.6.2-h35e630c_0
reproc conda-forge/linux-64::reproc-14.2.7.post0-hb03c661_1
reproc-cpp conda-forge/linux-64::reproc-cpp-14.2.7.post0-hecca717_1
simdjson conda-forge/linux-64::simdjson-4.6.4-hb700be7_0
spdlog conda-forge/linux-64::spdlog-1.17.0-hab81395_1
yaml-cpp conda-forge/linux-64::yaml-cpp-0.8.0-h3f2d84a_0
zstd conda-forge/linux-64::zstd-1.5.7-hb78ec9c_6

Proceed ([y]/n)? y

Downloading and Extracting Packages:

Preparing transaction: done
Verifying transaction: done
Executing transaction: done
(jitENV) hp@hp-HP-Z2-Tower-G9-Workstation-Desktop-PC:~/jitendraTEST$ mamba install -c jitendralab -c bioconda -c conda-forge crossroad -y
jitendralab/noarch ??.?MB @ ??.?MB/s 0.3s
jitendralab/linux-64 ??.?MB @ ??.?MB/s 0.4s
bioconda/linux-64 5.6MB @ 2.9MB/s 1.9s
bioconda/noarch 5.6MB @ 2.5MB/s 2.2s
conda-forge/noarch 26.4MB @ 6.0MB/s 4.5s
conda-forge/linux-64 53.8MB @ 6.7MB/s 8.2s

Transaction

Prefix: /home/hp/miniforge3/envs/jitENV

Updating specs:

- crossroad

Package Version Build Channel Size
─────────────────────────────────────────────────────────────────────────────────────────────────
Install:
─────────────────────────────────────────────────────────────────────────────────────────────────

+ annotated-doc 0.0.4 pyhcf101f3_0 conda-forge Cached
+ annotated-types 0.7.0 pyhd8ed1ab_1 conda-forge Cached
+ anyio 4.13.0 pyhcf101f3_0 conda-forge 147kB
+ argcomplete 3.6.3 pyhd8ed1ab_0 conda-forge Cached
+ aws-c-auth 0.10.3 h3aafcba_1 conda-forge 134kB
+ aws-c-cal 0.9.14 h8e43964_1 conda-forge 57kB
+ aws-c-common 0.13.1 hb03c661_0 conda-forge 242kB
+ aws-c-compression 0.3.2 h16e98cb_1 conda-forge 22kB
+ aws-c-event-stream 0.7.1 h9be7a74_1 conda-forge 59kB
+ aws-c-http 0.11.0 hcbcd92d_1 conda-forge 230kB
+ aws-c-io 0.26.3 h955231c_3 conda-forge 182kB
+ aws-c-mqtt 0.15.2 h8af55cf_3 conda-forge 222kB
+ aws-c-s3 0.12.3 h00bea6e_2 conda-forge 153kB
+ aws-c-sdkutils 0.2.4 h16e98cb_5 conda-forge 59kB
+ aws-checksums 0.2.10 h16e98cb_1 conda-forge 102kB
+ aws-crt-cpp 0.38.3 h7b0d4b4_2 conda-forge 413kB
+ aws-sdk-cpp 1.11.747 h5a171d8_5 conda-forge 4MB
+ azure-core-cpp 1.16.2 h206d751_0 conda-forge 349kB
+ azure-identity-cpp 1.13.3 hed0cdb0_1 conda-forge 251kB
+ azure-storage-blobs-cpp 12.17.0 hf824e48_1 conda-forge 587kB
+ azure-storage-common-cpp 12.13.0 ha7a2c86_0 conda-forge 159kB
+ azure-storage-files-datalake-cpp 12.15.0 h1e5b466_0 conda-forge 304kB
+ backports.zstd 1.5.0 py314h680f03e_0 conda-forge 8kB
+ bedtools 2.31.1 h13024bc_3 bioconda Cached
+ biopython 1.87 py314h5bd0f2a_0 conda-forge 3MB
+ brotli 1.2.0 hed03a55_1 conda-forge Cached
+ brotli-bin 1.2.0 hb03c661_1 conda-forge Cached
+ brotli-python 1.2.0 py314h3de4e8d_1 conda-forge 367kB
+ certifi 2026.5.20 pyhd8ed1ab_0 conda-forge 134kB
+ charset-normalizer 3.4.7 pyhd8ed1ab_0 conda-forge Cached
+ click 8.4.1 pyhc90fa1f_0 conda-forge 105kB
+ colorama 0.4.6 pyhd8ed1ab_1 conda-forge Cached
+ contourpy 1.3.3 py314h97ea11e_4 conda-forge 324kB
+ crossroad 0.3.6 pyh7e60211_0 jitendralab 2MB
+ cycler 0.12.1 pyhcf101f3_2 conda-forge Cached
+ dnspython 2.8.0 pyhcf101f3_0 conda-forge Cached
+ email-validator 2.3.0 pyhd8ed1ab_0 conda-forge 47kB
+ email_validator 2.3.0 hd8ed1ab_0 conda-forge 7kB
+ exceptiongroup 1.3.1 pyhd8ed1ab_0 conda-forge Cached
+ expat 2.8.1 hecca717_0 conda-forge 148kB
+ fastapi 0.136.3 h5ddb490_0 conda-forge 5kB
+ fastapi-cli 0.0.23 pyhcf101f3_0 conda-forge 19kB
+ fastapi-core 0.136.3 pyhcf101f3_0 conda-forge 96kB
+ fastar 0.11.0 py314h0b738fb_0 conda-forge 423kB
+ font-ttf-dejavu-sans-mono 2.37 hab24e00_0 conda-forge Cached
+ font-ttf-inconsolata 3.000 h77eed37_0 conda-forge Cached
+ font-ttf-source-code-pro 2.038 h77eed37_0 conda-forge Cached
+ font-ttf-ubuntu 0.83 h77eed37_3 conda-forge Cached
+ fontconfig 2.18.0 h27c8c51_0 conda-forge 281kB
+ fonts-conda-forge 1 hc364b38_1 conda-forge Cached
+ fonttools 4.63.0 pyh7db6752_0 conda-forge 846kB
+ freetype 2.14.3 ha770c72_0 conda-forge Cached
+ gflags 2.2.2 h5888daf_1005 conda-forge 120kB
+ glog 0.7.1 hbabe93e_0 conda-forge 143kB
+ h11 0.16.0 pyhcf101f3_1 conda-forge 39kB
+ h2 4.3.0 pyhcf101f3_0 conda-forge Cached
+ hpack 4.1.0 pyhd8ed1ab_0 conda-forge Cached
+ httpcore 1.0.9 pyh29332c3_0 conda-forge Cached
+ httptools 0.7.1 py314h5bd0f2a_1 conda-forge 99kB
+ httpx 0.28.1 pyhd8ed1ab_0 conda-forge Cached
+ hyperframe 6.1.0 pyhd8ed1ab_0 conda-forge Cached
+ idna 3.17 pyhcf101f3_0 conda-forge 57kB
+ jinja2 3.1.6 pyhcf101f3_1 conda-forge Cached
+ kaleido-core 0.2.1 h3644ca4_0 conda-forge Cached
+ kiwisolver 1.5.0 py314h97ea11e_0 conda-forge 77kB
+ lcms2 2.19.1 h0c24ade_0 conda-forge 251kB
+ ld_impl_linux-64 2.45.1 default_hbd61a6d_102 conda-forge Cached
+ lerc 4.1.0 hdb68285_0 conda-forge Cached
+ libabseil 20260107.1 cxx17_h7b12aa8_0 conda-forge 1MB
+ libarrow 24.0.0 h6f10b76_3_cpu conda-forge 7MB
+ libarrow-acero 24.0.0 h635bf11_3_cpu conda-forge 592kB
+ libarrow-compute 24.0.0 h53684a4_3_cpu conda-forge 3MB
+ libarrow-dataset 24.0.0 h635bf11_3_cpu conda-forge 592kB
+ libarrow-substrait 24.0.0 hb4dd7c2_3_cpu conda-forge 502kB
+ libblas 3.11.0 8_h4a7cf45_openblas conda-forge 19kB
+ libbrotlicommon 1.2.0 hb03c661_1 conda-forge Cached
+ libbrotlidec 1.2.0 hb03c661_1 conda-forge Cached
+ libbrotlienc 1.2.0 hb03c661_1 conda-forge Cached
+ libcblas 3.11.0 8_h0358290_openblas conda-forge 19kB
+ libcrc32c 1.1.2 h9c3ff4c_0 conda-forge Cached
+ libdeflate 1.25 h17f619e_0 conda-forge Cached
+ libevent 2.1.12 hf998b51_1 conda-forge Cached
+ libexpat 2.8.1 hecca717_0 conda-forge 77kB
+ libffi 3.5.2 h3435931_0 conda-forge Cached
+ libfreetype 2.14.3 ha770c72_0 conda-forge Cached
+ libfreetype6 2.14.3 h73754d4_0 conda-forge Cached
+ libgfortran 15.2.0 h69a702a_19 conda-forge 28kB
+ libgfortran5 15.2.0 h68bc16d_19 conda-forge 2MB
+ libgoogle-cloud 3.5.0 h25dbb67_0 conda-forge 3MB
+ libgoogle-cloud-storage 3.5.0 hdbdcf42_0 conda-forge 780kB
+ libgrpc 1.78.1 h1d1128b_0 conda-forge 7MB
+ libjpeg-turbo 3.1.4.1 hb03c661_0 conda-forge Cached
+ liblapack 3.11.0 8_h47877c9_openblas conda-forge 19kB
+ libmpdec 4.0.0 hb03c661_1 conda-forge 92kB
+ libopenblas 0.3.33 pthreads_h94d23a6_0 conda-forge 6MB
+ libopentelemetry-cpp 1.26.0 h9692893_0 conda-forge 934kB
+ libopentelemetry-cpp-headers 1.26.0 ha770c72_0 conda-forge 396kB
+ libparquet 24.0.0 h7376487_3_cpu conda-forge 1MB
+ libpng 1.6.58 h421ea60_0 conda-forge 318kB
+ libprotobuf 6.33.5 h6eeba95_1 conda-forge 4MB
+ libre2-11 2025.11.05 h0dc7533_1 conda-forge 213kB
+ libsqlite 3.53.1 h0c1763c_0 conda-forge 955kB
+ libstdcxx-ng 15.2.0 hdf11a46_19 conda-forge 28kB
+ libthrift 0.22.0 h7d032f7_2 conda-forge 424kB
+ libtiff 4.7.1 h9d88235_1 conda-forge Cached
+ libutf8proc 2.11.3 hfe17d71_0 conda-forge 86kB
+ libuuid 2.42.1 h5347b49_0 conda-forge 40kB
+ libuv 1.52.1 h280c20c_0 conda-forge 420kB
+ libwebp-base 1.6.0 hd42ef1d_0 conda-forge Cached
+ libxcb 1.17.0 h8a09558_0 conda-forge Cached
+ markdown-it-py 4.2.0 pyhd8ed1ab_0 conda-forge 69kB
+ markupsafe 3.0.3 py314h67df5f8_1 conda-forge 27kB
+ mathjax 2.7.7 ha770c72_3 conda-forge Cached
+ matplotlib-base 3.10.9 py314h1194b4b_0 conda-forge 9MB
+ mdurl 0.1.2 pyhd8ed1ab_1 conda-forge Cached
+ munkres 1.0.7 py_1 bioconda Cached
+ narwhals 2.21.2 pyhcf101f3_0 conda-forge 284kB
+ nlohmann_json 3.12.0 h54a6638_1 conda-forge 136kB
+ nspr 4.38 h29cc59b_0 conda-forge Cached
+ nss 3.118 h445c969_0 conda-forge Cached
+ numpy 2.4.6 py314h2b28147_0 conda-forge 9MB
+ openjpeg 2.5.4 h55fea9a_0 conda-forge Cached
+ orc 2.3.0 h21090e2_0 conda-forge 1MB
+ packaging 26.2 pyhc364b38_0 conda-forge 92kB
+ pandas 3.0.3 py314hb4ffadd_0 conda-forge 15MB
+ perf_ssr 0.4.8 py_0 jitendralab 720kB
+ pillow 12.2.0 py314h8ec4b1a_0 conda-forge 1MB
+ pip 26.1.1 pyh145f28c_0 conda-forge 1MB
+ plotly 6.6.0 pyhd8ed1ab_0 conda-forge Cached
+ plotly-upset-hd 0.0.2 py_0 jitendralab 356kB
+ prometheus-cpp 1.3.0 ha5d0236_0 conda-forge 200kB
+ pthread-stubs 0.4 hb9d3cd8_1002 conda-forge Cached
+ pyarrow 24.0.0 py314hdafbbf9_0 conda-forge 27kB
+ pyarrow-core 24.0.0 py314h969be7f_0_cpu conda-forge 5MB
+ pydantic 2.13.4 pyhcf101f3_0 conda-forge 347kB
+ pydantic-core 2.46.4 py314h2e6c369_0 conda-forge 2MB
+ pydantic-extra-types 2.11.2 pyhcf101f3_0 conda-forge 74kB
+ pydantic-settings 2.14.1 pyhcf101f3_0 conda-forge 52kB
+ pygments 2.20.0 pyhd8ed1ab_0 conda-forge Cached
+ pyparsing 3.3.2 pyhcf101f3_0 conda-forge Cached
+ pysocks 1.7.1 pyha55dd90_7 conda-forge Cached
+ python 3.14.5 habeac84_100_cp314 conda-forge 37MB
+ python-dateutil 2.9.0.post0 pyhe01879c_2 conda-forge Cached
+ python-dotenv 1.2.2 pyhcf101f3_0 conda-forge Cached
+ python-kaleido 0.2.1 pyhd8ed1ab_0 conda-forge Cached
+ python-multipart 0.0.29 pyhcf101f3_0 conda-forge 38kB
+ python_abi 3.14 8_cp314 conda-forge 7kB
+ pyyaml 6.0.3 py314h67df5f8_1 conda-forge 202kB
+ qhull 2020.2 h434a139_5 conda-forge Cached
+ re2 2025.11.05 h5301d42_1 conda-forge 27kB
+ readline 8.3 h853b02a_0 conda-forge Cached
+ requests 2.34.2 pyhcf101f3_0 conda-forge 69kB
+ rich 15.0.0 pyhcf101f3_0 conda-forge Cached
+ rich-argparse 1.8.0 pyhd8ed1ab_0 conda-forge 27kB
+ rich-click 1.9.8 pyh8f84b5b_0 conda-forge 64kB
+ rich-toolkit 0.19.10 pyhcf101f3_0 conda-forge 33kB
+ s2n 1.7.3 hc5a330e_0 conda-forge 388kB
+ seqkit 2.13.0 he881be0_0 bioconda Cached
+ seqtk 1.5 h577a1d6_1 bioconda 142kB
+ shellingham 1.5.4 pyhd8ed1ab_2 conda-forge Cached
+ six 1.17.0 pyhe01879c_1 conda-forge Cached
+ snappy 1.2.2 h03e3b7b_1 conda-forge Cached
+ sniffio 1.3.1 pyhd8ed1ab_2 conda-forge Cached
+ sqlite 3.53.1 hbc0de68_0 conda-forge 205kB
+ starlette 1.1.0 pyhcf101f3_0 conda-forge 64kB
+ tk 8.6.13 noxft_h366c992_103 conda-forge Cached
+ tomli 2.4.1 pyhcf101f3_0 conda-forge 22kB
+ tqdm 4.67.3 pyh8f84b5b_0 conda-forge Cached
+ typer 0.26.3 pyhcf101f3_0 conda-forge 184kB
+ typing-extensions 4.15.0 h396c80c_0 conda-forge Cached
+ typing-inspection 0.4.2 pyhcf101f3_2 conda-forge 21kB
+ typing_extensions 4.15.0 pyhcf101f3_0 conda-forge Cached
+ tzdata 2025c hc9c84f9_1 conda-forge Cached
+ unicodedata2 17.0.1 py314h5bd0f2a_0 conda-forge 410kB
+ upsetplot 0.9.0 pyhd8ed1ab_1 conda-forge 28kB
+ urllib3 2.7.0 pyhd8ed1ab_0 conda-forge 104kB
+ uvicorn 0.48.0 pyhc90fa1f_0 conda-forge 56kB
+ uvicorn-standard 0.48.0 he364bde_0 conda-forge 4kB
+ uvloop 0.22.1 py314h5bd0f2a_1 conda-forge 593kB
+ watchfiles 1.2.0 py314ha5689aa_0 conda-forge 416kB
+ websockets 16.0 py314h0f05182_1 conda-forge 383kB
+ xorg-libxau 1.0.12 hb03c661_1 conda-forge Cached
+ xorg-libxdmcp 1.1.5 hb03c661_1 conda-forge Cached
+ yaml 0.2.5 h280c20c_3 conda-forge Cached
+ zlib 1.3.2 h25fd6f3_2 conda-forge Cached
+ zlib-ng 2.3.3 hceb46e0_1 conda-forge Cached

Summary:

Install: 186 packages

Total download: 142MB

─────────────────────────────────────────────────────────────────────────────────────────────────

Transaction starting
libgrpc 7.0MB @ 2.3MB/s 3.0s
numpy 8.9MB @ 2.3MB/s 3.8s
matplotlib-base 8.5MB @ 2.0MB/s 4.2s
libarrow 6.5MB @ 2.3MB/s 2.8s
pandas 15.3MB @ 2.5MB/s 6.2s
libopenblas 5.9MB @ 2.3MB/s 2.5s
pyarrow-core 4.8MB @ 1.6MB/s 3.0s
libprotobuf 3.7MB @ 2.4MB/s 1.6s
aws-sdk-cpp 3.6MB @ 3.1MB/s 1.2s
biopython 3.4MB @ 2.0MB/s 1.7s
libgfortran5 2.5MB @ 2.6MB/s 1.0s
libgoogle-cloud 2.6MB @ 2.4MB/s 1.1s
pydantic-core 1.9MB @ 2.7MB/s 0.7s
libarrow-compute 3.0MB @ 1.9MB/s 1.6s
orc 1.5MB @ 2.8MB/s 0.5s
libparquet 1.4MB @ 3.1MB/s 0.5s
pip 1.2MB @ 2.9MB/s 0.4s
libabseil 1.4MB @ 2.2MB/s 0.6s
pillow 1.1MB @ 2.7MB/s 0.4s
libsqlite 955.0kB @ 2.9MB/s 0.3s
libgoogle-cloud-storage 779.6kB @ 2.7MB/s 0.3s
fonttools 846.0kB @ 2.1MB/s 0.4s
libopentelemetry-cpp 934.3kB @ 1.8MB/s 0.5s
libarrow-acero 592.3kB @ 2.2MB/s 0.2s
uvloop 593.4kB @ 1.3MB/s 0.4s
libarrow-dataset 592.2kB @ 2.7MB/s 0.2s
libarrow-substrait 501.9kB @ 1.8MB/s 0.2s
azure-storage-blobs-cpp 587.1kB @ 1.6MB/s 0.3s
libthrift 423.9kB @ 2.8MB/s 0.2s
crossroad 1.8MB @ 663.3kB/s 2.6s
libuv 419.9kB @ 2.3MB/s 0.2s
fastar 423.4kB @ 966.7kB/s 0.3s
aws-crt-cpp 412.5kB @ 2.9MB/s 0.1s
watchfiles 415.6kB @ 1.6MB/s 0.3s
unicodedata2 409.6kB @ 1.8MB/s 0.2s
libopentelemetry-cpp-headers 396.4kB @ 2.2MB/s 0.2s
s2n 388.1kB @ 2.5MB/s 0.1s
brotli-python 367.4kB @ 1.7MB/s 0.1s
websockets 383.0kB @ 1.3MB/s 0.3s
azure-core-cpp 348.7kB @ 2.7MB/s 0.1s
pydantic 346.5kB @ 1.9MB/s 0.2s
contourpy 324.0kB @ 2.3MB/s 0.1s
libpng 317.7kB @ 1.8MB/s 0.2s
azure-storage-files-datalake-cpp 303.8kB @ 1.9MB/s 0.1s
narwhals 284.3kB @ 1.8MB/s 0.2s
fontconfig 280.9kB @ 866.6kB/s 0.2s
python 36.7MB @ 3.0MB/s 12.0s
azure-identity-cpp 250.5kB @ 1.5MB/s 0.1s
lcms2 251.1kB @ 2.0MB/s 0.1s
aws-c-common 242.3kB @ 2.8MB/s 0.1s
libre2-11 213.1kB @ 66.4kB/s 0.1s
aws-c-http 230.3kB @ 1.7MB/s 0.1s
aws-c-mqtt 221.7kB @ 307.2kB/s 0.1s
sqlite 205.4kB @ ??.?MB/s 0.1s
perf_ssr 720.0kB @ 247.3kB/s 2.3s
prometheus-cpp 199.5kB @ 962.8kB/s 0.1s
pyyaml 202.4kB @ 1.6MB/s 0.1s
typer 184.4kB @ 1.9MB/s 0.1s
aws-c-io 181.6kB @ 1.9MB/s 0.1s
aws-c-s3 153.0kB @ 2.2MB/s 0.1s
azure-storage-common-cpp 159.1kB @ 1.8MB/s 0.1s
expat 148.2kB @ ??.?MB/s 0.0s
anyio 146.8kB @ 2.2MB/s 0.1s
glog 143.5kB @ 2.6MB/s 0.1s
seqtk 141.8kB @ 1.8MB/s 0.1s
nlohmann_json 136.2kB @ 2.1MB/s 0.1s
aws-c-auth 134.4kB @ 1.5MB/s 0.1s
certifi 134.2kB @ 1.8MB/s 0.1s
click 105.0kB @ 1.5MB/s 0.1s
gflags 119.7kB @ 148.2kB/s 0.1s
urllib3 103.6kB @ ??.?MB/s 0.0s
aws-checksums 101.6kB @ ??.?MB/s 0.0s
fastapi-core 95.5kB @ ??.?MB/s 0.0s
libmpdec 92.4kB @ ??.?MB/s 0.0s
packaging 91.6kB @ ??.?MB/s 0.0s
libutf8proc 86.0kB @ ??.?MB/s 0.0s
kiwisolver 77.4kB @ ??.?MB/s 0.0s
libexpat 77.3kB @ 885.4kB/s 0.1s
pydantic-extra-types 73.9kB @ ??.?MB/s 0.0s
markdown-it-py 69.0kB @ ??.?MB/s 0.0s
requests 68.7kB @ ??.?MB/s 0.0s
rich-click 64.4kB @ ??.?MB/s 0.0s
aws-c-event-stream 59.3kB @ ??.?MB/s 0.0s
starlette 63.7kB @ ??.?MB/s 0.0s
aws-c-sdkutils 59.1kB @ ??.?MB/s 0.0s
aws-c-cal 56.9kB @ ??.?MB/s 0.0s
idna 56.9kB @ ??.?MB/s 0.0s
uvicorn 56.3kB @ ??.?MB/s 0.0s
pydantic-settings 52.3kB @ ??.?MB/s 0.0s
email-validator 46.8kB @ ??.?MB/s 0.0s
libuuid 40.2kB @ ??.?MB/s 0.0s
h11 39.1kB @ ??.?MB/s 0.0s
python-multipart 37.8kB @ ??.?MB/s 0.0s
rich-toolkit 32.9kB @ ??.?MB/s 0.0s
upsetplot 28.0kB @ ??.?MB/s 0.0s
libstdcxx-ng 27.8kB @ ??.?MB/s 0.0s
libgfortran 27.7kB @ ??.?MB/s 0.0s
re2 27.5kB @ ??.?MB/s 0.0s
markupsafe 27.4kB @ ??.?MB/s 0.0s
pyarrow 26.8kB @ ??.?MB/s 0.0s
aws-c-compression 22.0kB @ ??.?MB/s 0.0s
tomli 21.6kB @ ??.?MB/s 0.0s
typing-inspection 20.9kB @ ??.?MB/s 0.0s
fastapi-cli 18.9kB @ ??.?MB/s 0.0s
libblas 18.8kB @ ??.?MB/s 0.0s
httptools 99.0kB @ ??.?MB/s 0.4s
liblapack 18.8kB @ ??.?MB/s 0.0s
libcblas 18.8kB @ ??.?MB/s 0.0s
email_validator 7.1kB @ ??.?MB/s 0.0s
backports.zstd 7.5kB @ ??.?MB/s 0.0s
python_abi 7.0kB @ ??.?MB/s 0.0s
fastapi 4.8kB @ ??.?MB/s 0.0s
uvicorn-standard 4.1kB @ ??.?MB/s 0.0s
rich-argparse 26.8kB @ ??.?MB/s 0.2s
plotly-upset-hd 356.0kB @ 181.5kB/s 1.8s
Linking seqkit-2.13.0-he881be0_0
Linking bedtools-2.31.1-h13024bc_3
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Linking pthread-stubs-0.4-hb9d3cd8_1002
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Linking snappy-1.2.2-h03e3b7b_1
Linking nlohmann_json-3.12.0-h54a6638_1
Linking aws-c-common-0.13.1-hb03c661_0
Linking s2n-1.7.3-hc5a330e_0
Linking gflags-2.2.2-h5888daf_1005
Linking libevent-2.1.12-hf998b51_1
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Linking libtiff-4.7.1-h9d88235_1
Linking sqlite-3.53.1-hbc0de68_0
Linking nss-3.118-h445c969_0
Linking azure-identity-cpp-1.13.3-hed0cdb0_1
Linking azure-storage-common-cpp-12.13.0-ha7a2c86_0
Linking libprotobuf-6.33.5-h6eeba95_1
Linking libre2-11-2025.11.05-h0dc7533_1
Linking prometheus-cpp-1.3.0-ha5d0236_0
Linking aws-c-compression-0.3.2-h16e98cb_1
Linking aws-checksums-0.2.10-h16e98cb_1
Linking aws-c-sdkutils-0.2.4-h16e98cb_5
Linking aws-c-cal-0.9.14-h8e43964_1
Linking glog-0.7.1-hbabe93e_0
Linking libthrift-0.22.0-h7d032f7_2
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Linking lcms2-2.19.1-h0c24ade_0
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Linking azure-storage-blobs-cpp-12.17.0-hf824e48_1
Linking re2-2025.11.05-h5301d42_1
Linking aws-c-io-0.26.3-h955231c_3
Linking libblas-3.11.0-8_h4a7cf45_openblas
Linking fontconfig-2.18.0-h27c8c51_0
Linking freetype-2.14.3-ha770c72_0
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Linking azure-storage-files-datalake-cpp-12.15.0-h1e5b466_0
Linking libgrpc-1.78.1-h1d1128b_0
Linking aws-c-event-stream-0.7.1-h9be7a74_1
Linking aws-c-http-0.11.0-hcbcd92d_1
Linking libcblas-3.11.0-8_h0358290_openblas
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Linking libopentelemetry-cpp-1.26.0-h9692893_0
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Linking libgoogle-cloud-3.5.0-h25dbb67_0
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Transaction finished

(jitENV) hp@hp-HP-Z2-Tower-G9-Workstation-Desktop-PC:~/jitendraTEST$ crossroad -h

Usage: crossroad [OPTIONS]

Run the main croSSRoad analysis pipeline, or manage jobs.

╭─ Options ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╮
│ --version -v Show version, logo, citation, and links. │
│ --install-completion Install completion for the current shell. │
│ --show-completion Show completion for the current shell, to copy it or customize the installation. │
│ --help -h Show this message and exit. │
╰──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╯
╭─ Mode Selection ─────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╮
│ --api -a Run the Crossroad web API server. │
│ --slurm -s Submit the analysis job to a Slurm cluster. │
│ --job-status JOB_ID Query the status of a specific job ID. │
╰──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╯
╭─ Input Files (provide --input-dir OR --fasta) ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╮
│ --input-dir -i PATH Directory containing: `all_genome.fa`, ``, ``. Exclusive with `--fasta`. │
│ --fasta -fa PATH Input FASTA file (e.g., `all_genome.fa`). Alternative to `--input-dir`. │
│ --categories -c PATH Genome categories TSV file. Optional if using `--fasta`. Ignored if `--input-dir` is used (looks for `genome_categories.tsv` inside). │
│ --gene-bed -b PATH Gene BED file for SSR-gene analysis. Optional. If `--input-dir` is used, looks for `gene.bed` inside. │
╰──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╯
╭─ Analysis Parameters ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╮
│ --reference-id -ref TEXT Reference genome ID for comparative analysis. Optional parameter for reference-based comparisons. │
│ --output-dir -o DIRECTORY Base output directory for jobs. Overrides CROSSROAD_JOB_DIR env var. │
│ --flanks -f Process flanking regions. │
╰──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╯
╭─ PERF SSR Detection Parameters ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╮
│ --mono INTEGER Mononucleotide repeat threshold. [default: 12] │
│ --di INTEGER Dinucleotide repeat threshold. [default: 6] │
│ --tri INTEGER Trinucleotide repeat threshold. [default: 4] │
│ --tetra INTEGER Tetranucleotide repeat threshold. [default: 3] │
│ --penta INTEGER Pentanucleotide repeat threshold. [default: 3] │
│ --hexa INTEGER Hexanucleotide repeat threshold. [default: 2] │
╰──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╯
╭─ Filtering Parameters ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╮
│ --min-len -l INTEGER Minimum genome length for filtering. [default: 1000] │
│ --max-len -L INTEGER Maximum genome length for filtering. [default: 10000000] │
│ --unfair -u INTEGER Maximum number of N's allowed per genome for Crossroad analysis. [default: 0] │
│ --repeat-threshold -rc INTEGER Repeat count Threshold for hotspot filtering (keeps records > this value). [default: 1] │
│ --genome-threshold -g INTEGER Genome count Threshold for hotspot filtering (keeps records > this value). [default: 2] │
╰──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╯
╭─ Performance & Output ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╮
│ --threads -t INTEGER Number of threads for Crossroad analysis. [default: 50] │
│ --plots -p Enable plot generation. │
│ --intrim-dir TEXT Name for the intermediate files directory (within the main job output dir). [default: intrim] │
╰──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────╯

(jitENV) hp@hp-HP-Z2-Tower-G9-Workstation-Desktop-PC:~/jitendraTEST$

#Find the reverse complement of a DNA string.
#Given: A DNA string Pattern.
#Return: Pattern, the reverse complement of Pattern.

use strict;
use warnings;

my $string="AAAACCCGGT";
my $finalString="";
my %hash = (
    "C" => "G",
    "A" => "T",
    "T" => "A",
    "G" => "C",
);

for (my $aa=0; $aa<=(length($string)-1); $aa++) {
    my $char=substr $string, $aa, 1;
    #print $hash{$char};
    $finalString="$hash{$char}"."$finalString";
}

print $finalString;
print "\n";

Monthly fellowship (in rupee): 5,000/-

Traineeship

First Class M.Sc Bioinformatics/ Biotechnology/ Botany

Studentship: 5,000/-

M.Phil/M.Tech Bioinformatics/ Biotechnology/ any branch of Life Science students for doing their thesis work in the area of Bioinformatics.

Age limit as on 1.1.2015, 28 years. Age relaxation will be provided for SC, ST, OBC candidates as per Govt. norms.

Interested candidates may appear for walk-in-interview on 16th June 2015 at 10.30 am at JNTBGRI, Palode, Thiruvananthapuram. The candidate should report to the Office at Palode before 10.00 am

More at http://www.jntbgri.in/jntbgri/news/File0001.pdf

Sr Research Fellow & Technical Asst Posts: Indian Institute of Maize Research (IIMR), New Delhi has advertised a notification for the recruitment of Senior Research Fellow & Technical Assistant vacancies for the project titled “Genetic modifications to improve biological nitrogen fixation for augmenting nitrogen needs of cereals” on contractual basis. Eligible candidates may apply in prescribed application format on or before 25-06-2015. Other details like age, educational qualification, selection process, how to apply are given below…

Indian Institute of Maize Research Vacancy Details:
Total No. of Posts: 03
Name of the Posts :
1. Senior Research Fellow: 02 Posts
2. Technical Assistant: 01 Post

Age Limit: Candidates age should be 35 years for Senior Research Fellow, Minimum 21 years and maximum 45 years for Technical Assistant as on the closing date of the application. Age relaxation is 5 years to SC/ST and women candidates and 3 years to OBC candidates as per ICAR rules.

Educational Qualification: Candidates should possess Post graduate degree in Biotechnology/ Molecular Biology/ Bioinformatics/ Plant physiology for Senior Research fellow, Graduate degree in Agriculture/ Biotechnology/ any discipline of life sciences for Technical Assistant with relevant experience.

Selection Process: Candidates will be selected based on their performance in interview.

How to Apply: Eligible candidates can send their application in prescribed format along with bio-data to Dr. Pranjal Yadava, Principal Investigator, ICAR Indian Institute of Maize Research, Pusa Campus, New Delhi-110012 or mail to pranjal.yadava@gmail.com on or before 25-06-2015 & attend the interview along with application in the attached format at the time of interview, one passport size photograph, self attested copies of certificates for age, and qualifications, reprints of publications and ‘No Objection Certificate’, original documents on 01-07-2015. Venue details are mentioned below.

Important Dates:
Last Date for Receipt of Application: 25-06-2015
Date & Time of Interview : 01-07-2015.
Venue: IIMR, Pusa Campus, New Delhi