Jit
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A-allele of SLC24A5 gene is found to be responsible for variation in skin color of South-East...
By Rahul Agarwal 4177 days agoMore is the A -allele, More is fairer the Skin !!SNPGenie
By Jit 2944 days agogithub.com - SNPGenie is a Perl script for estimating evolutionary parameters, mainly from pooled next-generation sequencing (NGS) single-nucleotide polymorphism (SNP) variant data. SNP reports (acceptable in a variety of formats) much each correspond to a...Variant Calling Pipeline
By LEGE 184 days agogithub.com - The variantcalling.nf nextflow script will take any number of samples with paired-end reads in FASTQ format, map reads using Bowtie2, process BAM files, and finally call variants using BCFtools v1.21 and/or Freebayes v1.3.6. If part of the...vt: a variant tool set that discovers short variants from Next Generation Sequencing data.
By Jit 1910 days agogenome.sph.umich.edu - vt is a variant tool set that discovers short variants from Next Generation Sequencing data. https://genome.sph.umich.edu/wiki/Vt https://github.com/atks/vtThe new corona variant has 23 mutations in all, which is unusually huge !
By Shruti Paniwala 1580 days agoThe new SARS-CoV-2 version, B.1.1.7, which was first seen in the third week of September in Kent and Greater London, has since spread to other locations in the UK.SvABA: Structural variation and indel detection by local assembly
By Jit 1868 days agogithub.com - SvABA is a method for detecting structural variants in sequencing data using genome-wide local assembly. Under the hood, SvABA uses a custom implementation of SGA (String Graph Assembler) by Jared Simpson, and BWA-MEM by Heng Li....Hagfish - assess an assembly through creative use of coverage plots
By Abhi 3257 days agogithub.com - Hagfish is a tool that is to be used in data analysis of Next Generation Sequencing (NGS) experiments. Hagfish builds on the concept of coverage plots and aims to assist (amongst others) in quality control of de novo genome assembly or...SeqMule: Automated human exome/genome variants detection
By Abhimanyu Singh 2967 days agoseqmule.openbioinformatics.org - SeqMule takes single-end or paird-end FASTQ or BAM files, generates a script consisting of more than 10 popular alignment, analysis tools and runs the script line by line. Users can change the pipeline or fine-tune the parameters by modifying its...Dynamic Programming Alignment
By Jitendra Narayan 4260 days agolecture 9, Chem. C100, Spring 2013, UCLASATSUMA : Highly sensitive whole-genome synteny alignments.
By Jit 3265 days agosatsuma.sourceforge.net - Satsuma is a whole-genome synteny alignment program. It takes two genomes, computes alignments, and then keeps only the parts that are orthologous, i.e. following the conserved order and orientation of features, such as protein coding genes,...
