Computational methods used by the Shasta assembler include:

• Using a run-length representation of the read sequence. This makes the assembly process more resilient to errors in homopolymer repeat counts, which are the most common type of errors in Oxford Nanopore reads.
• Using in some phases of the computation a representation of the read sequence based on markers, a fixed subset of short k-mers (k ≈ 10).

More at https://chanzuckerberg.github.io/shasta/index.html

Address of the bookmark: https://github.com/chanzuckerberg/shasta

Careful encoding of graph entities allows odgi to efficiently compute and transform pangenomes with minimal overheads. odgi implements a dynamic data structure that leveraged multi-core CPUs and can be updated on the fly.

The edges and path steps are recorded as deltas between the current node id and the target node id, where the node id corresponds to the rank in the global array of nodes. Graphs built from biological data sets tend to have local partial order and, when sorted, the deltas be small. This allows them to be compressed with a variable length integer representation, resulting in a small in-memory footprint at the cost of packing and unpacking.

The RAM and computational savings are substantial. In partially ordered regions of the graph, most deltas will require only a single byte.

Address of the bookmark: https://github.com/pangenome/odgi

To read the manual, please click the link https://askarbek-orakov.github.io/ASAR/

Address of the bookmark: https://github.com/Askarbek-orakov/ASAR

Location : Kulu

Job Category : Govt Jobs, Research

Last Date : 20 May 2015

Job Type : Full Time

Hiring Process : Walk - In
IIT Mandi - Job Details
IIT Mandi

Project Associate Bioinformatics Job vacancies in IIT Mandi on purely temporary

Project: “Exploring the Human Microbiome: A hunt for the candidates for Pre- and Pro-biotics.”

Minimum Qualification and Experience: M.Sc. in Bioinformatics OR B.Tech / BE in Bioinformatics OR M. Sc. in Biotechnology / Life sciences or related areas with Diploma or relevant experience in Bioinformatics OR B.Tech in Biotechnology / Computer Science or MCA or B. Sc. in Life Sciences or related areas with PG diploma in Bioinformatics. Candidates with experience in NGS data handling and analysis will be preferred. Tenure: Initially for one year, extendable based upon performance.

No of Posts: 01

Salary: Rs. 12000- 18000/- per month.

How to apply

Interested candidates can come for a Walk-in-Interview on 20th May 2015 starting at 8:30 AM at the Academic Block, Indian Institute of Technology (IIT), Mandi, Vallabh College Campus, Near Bus Stand, Mandi, HP. The candidates should bring along their curriculum vitae (CV) and copies of educational and experience certificates. In case of any queries please contact: Dr. Tulika Prakash Srivastava (Principal Investigator), Indian Institute of Technology Mandi, Near Bus Stand Mandi - 175 001, Himachal Pradesh.

More at

http://www.iitmandi.ac.in/administration/advrt/Walk-in-interview_Ad.pdf

Address of the bookmark: https://www.nature.com/articles/s41588-020-0700-8

Project Assistant (Level-II) job position in Central Food Technological Research Institute (CFTRI) on a temporary contractual basis in the research project (GAP 0469) funded by Science & Engineering Research Board (SERB), Government of India, New Delhi tenable at the Lipidomics Centre, CSIR-CFTRI, Mysore, Karnataka

Name of the Position :

Qualification : First class M. Sc. in Biochemistry/Microbiology/Genetics/ Bioinformatics with good academic record and preferably with experience in molecular biology techniques and basic knowledge of molecular biology and biological chemistry

Emoluments : Rs. 12,000/- per month (Consolidated)

Age Limit : The upper age limit for applying shall be 28 years (as on 22-5-2015), which is relaxed for candidates belonging to Scheduled Castes/Schedule Tribes, Women, Persons with Disabilities (PWD) and OBCs as per GoI norms.

How to apply

Eligible candidates may send their complete Bio-data with e-mail address/contact phone number along with attested copies of the necessary certificates through post to Prof. Ram Rajasekharan, Lipidomics Centre, Department of Lipid Science, CSIR-CFTRI, Mysore-570 020, Karnataka (email: ram@cftri.res.in) on or before 22.05.2015

More at http://www.cftri.com/pa_gap0469.html

Address of the bookmark: https://github.com/SAMtoBAM/MUMandCo

Details will be available at: http://nrcorchids.nic.in/Employments/Vacancy%20-%20JRF.pdf

Address of the bookmark: https://genomes.atcc.org/

Address of the bookmark: https://proksee.ca/