Given the potential relevance of efficient haplotyping in several analysis pipelines, we have designed and engineered pWhatsHap, a parallel, high-performance version of WhatsHap. pWhatsHap is embedded in a toolkit developed in Python and supports genomics datasets in standard file formats. Building on WhatsHap, pWhatsHap exhibits the same complexity exploring a number of possible solutions which is exponential in the coverage of the dataset. The parallel implementation on multi-core architectures allows for a relevant reduction of the execution time for haplotyping, while the provided results enjoy the same high accuracy as that provided by WhatsHap, which increases with coverage.

https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1170-y

Address of the bookmark: https://bitbucket.org/whatshap/whatshap

We are looking for highly motivated and bright individuals interested in high-throughput cutting-edge data analyses methods in genomics (computational positions). Available positions:

Applications are invited from suitable candidates in both, the Max Planck India Partner Program and the CRP Wheat Program for openings at the levels:

Minimum qualification Salary scale (per month)

Project assistant Bachelor’s / Master’s Rs. 10000 / Rs. 14000

Project fellow (junior data analyst) Masters + research experience Rs. 16000

Research fellow (senior data analyst) Masters + adequate research experience/desirable skill sets Rs. 22000

Research Associated PhD (<1yr) / > 1 yr experience Rs. 28000 / Rs. 32000

Condition to satisfactory performance, availability of funds and requirements of the project, the positions could be available upto a period of ~2 years (or funding of the project).

Essential qualification: MSc/BTech/MTech/PhD (or other suitable qualification) in discipline related to bioinformatics, computational biology, computer application (or equivalent)/ ‘Advance PostGraduate Diploma in Bioinformatics’. Proficiency in one of the programming languages or statistics (proficient in R for example) is compulsory.

Desirable qualification:

1. Programming experiences in at least one low level language such as C/C++ and one scripting language such as Perl/Python/PHP and knowledge of SQL/MySQL.

2. Substantial experience in the linux or other unix environments.

Application process: Applications should contain CV along with brief description (maximum 1 page) of research conducted (highlighting skills and experience) till now. Applications should be sent by email to Shree P. Pandey, Department of Biological Sciences, IISER-Kolkata, Mohanpur Campus, West Bengal within 2 weeks (Feb 19th 2015). E-mail: sppiiserkol@gmail.com, sppandey@iiserkol.ac.in Brief description of the group: We are an interdisciplinary group focusing on small-RNA (miRNA, siRNA) mediated regulation of signaling and defense. Project equally involve bioinformatics and systems biology (specially microarrays and next-generation sequencing (NGS) data analysis and its use), along with plant molecular biology, genetic engineering, field biology, and analytical plant chemistry for understanding response of plants to biotic stresses. For more details visit: http://www.iiserkol.ac.in/~sppandey/

Advertisement:

www.iiserkol.ac.in/images/iiserk/advertisements/advertisement_7_spp_feb_2015.pdf

Address of the bookmark: https://www.biostars.org/p/261203/

Name of the Post: Research Associate
No. of the Post: 01 One
Age Limit: Max. 35 years
Salary: Rs. 22000/- per month plus HRA

Required Job Profile:
Candidate must possess M.Sc. in bioinformatics or biotechnology from recognized university or institute.
Desired Job Profile;
Candidate having Ph.D. or pursuing Ph.D. in the related subject or equivalent published work in reputed peer reviewed journals or advance PG dipoma in bioinformatics course.

How to apply:
Eligible and interested candidates should need to send the bio-data and bring all related documents in original and set of attested copies of the same in the time of interview.

Last date: 16.02.2015
Refer to http://www.nehu.ac.in/Advertisements/BIFTuraAdvt_221214.pdf

Summary
Employer Address: Dr.B.K. Mishra Coordinator BIF, RDAP Department, North Eastern Hill University, Tura Campus, Tura, Meghalaya
Email: drbkm1972@yahoo.co.in;birendramishra14@gmail.com
URL: http://www.nehu.ac.in/Advertisements/BIFTuraAdvt_221214.pdf
Phone: 03651-223107
Required Skills: not mentioned / required for this post
Required Experience: not mentioned / required for this job post
Required Education: M.Sc. in bioinformatics or biotechnology from recognized university or institute.
Job Location: Tura, Meghalaya, India

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2397507/ 

http://amos.sourceforge.net/wiki/index.php/AMOS

Address of the bookmark: http://amos.sourceforge.net/wiki/index.php/AMOS

Installation

To download the development version of pacman:

Download the zip ball or tar ball, decompress and run R CMD INSTALL on it, or use the devtools package to install the development version:

## Make sure your current packages are up to date
update.packages()
## devtools is required
devtools::install_github("trinker/pacman")

Note: Windows users need Rtools and devtools to install this way.

More at https://github.com/trinker/pacman

The strength of this browser is the ability to navigate an up to date assembly and identify problematic regions and assist in strategizing potential solutions for these issues.

This facilitates the improvement of overall assemblies to a “gold” standard for release as reference genomes

Address of the bookmark: https://geval.sanger.ac.uk/index.html

Young Professional II (Computer Science/Applications)
Master degree in Computer Science/Computer Applications/B.Tech (Computer Science) or equivalent.
Desirable: 1. Knowledge of Statistical and Computational Genomics/ Proteomics/ Bioinformatics/Data mining tools. 2. Experience in handling HPC, programming languages and database management packages.
A consolidated salary of Rs.25,000/- per month.
21 to 45 year

Young Professional II (Biotechnology/ Bioinformatics)
Master degree in Bioinformatics/ Biotechnology/ B. Tech(Biotech) or equivalent. Desirable: 1. Knowledge of Computational Genomics/Proteomics/Bioinformatics. 2. Expertise in NGS data analysis and knowledge of allied software and tools.
A consolidated salary of Rs.25,000/- per month.

Senior Research Fellow
1. Bachelors degree with Zoology, Fisheries and 2. Master's degree in Fishery science/ Zoology with Fisheries/ Biotechnology/ Life Sciences with specialization in Fisheries/ Molecular Biology. 3. 1 st Division or 60% marks or equivalent overall grade point average.
Desirable: Work experience in Fisheries, molecular research techniques, bioinformatics and Computer skills. NET qualified
Note: The project involves extensive exploration tours and sampling from water bodies all over India
Rs.16,000/- p.m. for 1st & 2nd year and `18,000/- p.m. for 3rd and subsequent years +HRA (as per rules) 35 years for male and 40 years for female candidate

How to apply

A walk-in-interview will be held on 04th March, 2015 at 10:00 hrs at National Bureau of Fish Genetic Resources, Lucknow. Eligible and desirous candidates fulfilling all the requirements may appear for the interview with duly filled in application giving full details of academic records and experience(s) along with attested photocopy as well as original copy of the relevant documents and a passport size photograph on the attached proforma.

http://www.nbfgr.res.in/

Protocol Overview / Introduction

In this protocol we discuss and outline the process of de novo assembly for small to medium sized genomes.

https://www.melbournebioinformatics.org.au/tutorials/tutorials/assembly/assembly-protocol/

Address of the bookmark: https://www.melbournebioinformatics.org.au/tutorials/tutorials/assembly/assembly-protocol/

Address of the bookmark: https://schneebergerlab.github.io/syri/