Jit
Enthusiast computational biologist with business dream !!!
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BEDOPS v2.4.26: high-performance genomic feature operations
By Jit 2769 days agogithub.com - BEDOPS v2.4.26 is a suite of tools to address common questions raised in genomic studies — mostly with regard to overlap and proximity relationships between data sets. It aims to be scalable and flexible, facilitating the efficient and...Research Fellows at AIMSCS, Hyderabad
C.R.Rao Advanced Institute of Mathematics, Statistics and Computer Science (AIMSCS) - Hyderabad, Andhra Pradesh Advertisement No.: 5/2015 Research Fellows Systems Biology job vacancy in C.R.Rao Advanced Institute of Mathematics, Statistics and...pbalign: maps PacBio reads to reference sequences and saves alignments to a BAM file
By Jit 2423 days agogithub.com - pbalign aligns PacBio reads to reference sequences, filters aligned reads according to user-specific filtering criteria, and converts the output to either the SAM format or PacBio Compare HDF5 (e.g., .cmp.h5) format. The output Compare HDF5 file...
Perl One liner basics !!
Last updated 3519 days ago by Abhimanyu SinghPerl has a ton of command line switches (see perldoc perlrun), but I'm just going to cover the ones you'll commonly need to debug code. The most important switch is -e, for execute (or maybe "engage" :) ). The -e switch takes a quoted string of Perl...nanofilt: Filtering and trimming of long read sequencing data
By Jit 2355 days ago Comments (1)github.com - Filtering on quality and/or read length, and optional trimming after passing filters.Reads from stdin, writes to stdout. Intended to be used: directly after fastq extraction prior to mapping in a stream between extraction and...Rosenberg lab
Research. Research in the lab focuses on mathematical, statistical, and computational problems in evolutionary biology and human genetics. Long-term interests of the lab include topics such as: Human genetic variation Inference of human...BASE: a practical de novo assembler for large genomes using long NGS reads
By Rahul Nayak 2275 days agogithub.com - new de novo assembler called BASE. It enhances the classic seed-extension approach by indexing the reads efficiently to generate adaptive seeds that have high probability to appear uniquely in the genome. Such seeds form the basis for BASE...JRF Bioinformatics @ ICAR - National Research Centre for Orchids Pakyong
ICAR - National Research Centre for Orchids Pakyong F.No:NRCO/Admn/DBT /136 / Walk-in-Interviews will be held at 737106, Sikkim for the post of 01 (One Project ‘DBT’s Twinning programme for the NE’ titled “Assessment of some fragrant...nQuire: A statistical framework for ploidy estimation using NGS short-read data
By Jit 2171 days agogithub.com - nQuire implements a set of commands to estimate ploidy level of individuals from species, where recent polyploidization occurred and intraspecific ploidy variation is observed. Specifically, nQuire uses next-generation sequencing data to distinguish...
