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Latest activity

• • Jitendra Narayan@admin

  

  Jitendra Narayan posted a new ad in the Opportunity Job offer for a postdoctoral researcher in genomics / bioinformatics (2 years) 1127 days ago
• • Surabhi Chaudhary@surabhi

  

  Surabhi Chaudhary created a new bio-script Perl onliner to check the ids in two files ! 1127 days ago
• • Abhi@abhinav

  

  Abhi created a new bio-script Onliner to convert multi line fasta to single line fasta ! 1129 days ago
• • Surabhi Chaudhary@surabhi

  

  Surabhi Chaudhary created a new bio-script Simulate the reads ! 1129 days ago
• • Abhi@abhinav

  

  Abhi bookmarked Understanding pango networks ! 1132 days ago

  In the vast majority of instances it is expected that Pango lineage names and designations will conform to the following rules. These rules also act as guidelines for the decisions made by the Lineage Designation...

  https://www.pango.network/the-pango-nomenclature-system/statement-of-nomenclature-rules/
• • Abhi@abhinav

  

  Abhi published a blog post Basic Structure of Snakemake Pipeline Run ! 1134 days ago

  Brief Overview of Snakemake Pipeline Commands
• • Abhi@abhinav

  

  Abhi bookmarked UPGMA Worked Example 1135 days ago

  The tabs below include a walkthrough of clustering 7 biological sequences (A-G) using the Unweighted Pair-Group Method with Arithmetic mean (UPGMA) method. Note that UPGMA is actually a generic method and thus the walkthrough could apply to any...

  http://www.slimsuite.unsw.edu.au/teaching/upgma/
• • Abhi@abhinav

  

  Abhi bookmarked Introduction to phylogenies in R 1136 days ago

  R phylogenetics is built on the contributed packages for phylogenetics in R, and there are many such packages. Let's begin today by installing a few critical packages, such as ape, phangorn, phytools, and geiger. To get the most recent CRAN version...

  http://www.phytools.org/Cordoba2017/ex/2/Intro-to-phylogenies.html
• • Abhi@abhinav

  

  Abhi commented on the blog How to install Perl modules manually, using CPAN command, and other quick ways in the group Perl *PIPERs 1138 days ago

  If you are on Conda, you can try installing cpamn  https://anaconda.org/bioconda/perl-app-cpanminus and then cpanm install <name>  
• • Jit@jit.aber

  

  Jit bookmarked RNA-seq workflow: gene-level exploratory analysis and differential expression 1139 days ago

  Here we walk through an end-to-end gene-level RNA-seq differential expression workflow using Bioconductor packages. We will start from the FASTQ files, show how these were quantified to the reference transcripts, and prepare gene-level count...

  http://master.bioconductor.org/packages/release/workflows/vignettes/rnaseqGene/inst/doc/rnaseqGene.html
• • Jit@jit.aber

  

  Jit bookmarked PaReBrick: PArallel REarrangements and BReaks identification toolkit 1140 days ago

  PaReBrick. The tool takes a collection of strains represented as a sequence of oriented synteny blocks and a phylogenetic tree as input data. It identifies rearrangements, tests them for consistency with a tree, and sorts the events by their...

  https://github.com/ctlab/parallel-rearrangements
• • Jit@jit.aber

  

  Jit commented on a bookmark Far Manager Commands and Links ! 1141 days ago

  We press the combination Alt keys+ F1 or Alt + F2, in the menu that opens, select NetBox, it is under the number 2. Now we need to create a connection to our server. Let's say you have data for connecting via SSH:Login: root, password: pass,...
• • Jit@jit.aber

  

  Jit commented on a bookmark Far Manager Commands and Links ! 1141 days ago

  You can also open an additional menu by holding down the button Shift, which is mainly intended for working with files and archives, namely: F1- add files to archive F2- extract files from archive F3- execute archive management...
• • Jit@jit.aber

  

  Jit commented on a bookmark Far Manager Commands and Links ! 1141 days ago

  Just F1 commands F1- show / hide the left panel F2- show / hide right panel F3- sort by file name F4- sort by extension F5- sort by recording time F6- sort by size F7- do not sort F8- sort by creation time F9- sort by access time F10-...
• • Jit@jit.aber

  

  Jit commented on a bookmark Far Manager Commands and Links ! 1141 days ago

  Alt, which is mainly intended for working with files and directories, namely: F1- open the current disk in the left pane F2- open the current disk in the right pane F3- here you can open the file for viewing both in an external program and in...
• • Abhi@abhinav

  

  Abhi bookmarked MMseqs2: ultra fast and sensitive sequence search and clustering suite 1142 days ago

  MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets. MMseqs2 is open source GPL-licensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin)...

  https://github.com/soedinglab/MMseqs2
• • Abhi@abhinav

  

  Abhi created a new bio-script Downloading mmseqs databases ! 1142 days ago
• • Abhi@abhinav

  

  Abhi posted to the wire 1143 days ago

  The #Uniclust90, #Uniclust50, #Uniclust30 databases cluster #UniProtKB sequences at the level of 90%, 50% and 30% pairwise sequence identity.
• • Abhi@abhinav

  

  Abhi created a new bio-script Install hhsuite using conda ! 1143 days ago
• • Abhi@abhinav

  

  Abhi commented on the bio-script Download desire version of Blast software ! 1143 days ago

  Latest blast software and old versions https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/ 

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