Jit
Enthusiast computational biologist with business dream !!!
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SLIDESORT-BPR
By Abhimanyu Singh 2559 days agogithub.com - Chromosomal rearrangement events are caused by abnormal breaking and rejoining of DNA molecules. They are responsible for many of the cancer related diseases. Detecting the DNA breaking and repairing mechanism, therefore, may offer vital clues about...SiLiX: implements an ultra-efficient algorithm for the clustering of homologous sequences
By Jit 2172 days agolbbe.univ-lyon1.fr - The software package SiLiX implements an ultra-efficient algorithm for the clustering of homologous sequences, based on single transitive links (single linkage) with alignment coverage constraints. SiLiX adopts a graph-theoretical framework to...alien_index : identify potential contaminants or horizontally transferred genes in transcriptomes.
By Jit 1755 days agogithub.com - identify potential contaminants or horizontally transferred genes in transcriptomes. algorithm is based on alogorithm described in the following: Gladyshev, Eugene A., Matthew Meselson, and Irina R. Arkhipova. "Massive horizontal gene transfer in...Picard
By Neel 3129 days agobroadinstitute.github.io - Picard is a set of command line tools for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF. These file formats are defined in the Hts-specs repository. See especially the SAM specification and the VCF...Andi
By Jit 3115 days agobioinformatics.oxfordjournals.org - This is the andi program for estimating the evolutionary distance between closely related genomes. These distances can be used to rapidly infer phylogenies for big sets of genomes. Because andi does not compute full alignments, it is so efficient...Bpipe - a tool for running and managing bioinformatics pipelines
By Radha Agarkar 3107 days agohttp://docs.bpipe.org/ - Bpipe provides a platform for running big bioinformatics jobs that consist of a series of processing stages - known as 'pipelines'. January 20th, 2016 - New! Bpipe 0.9.9 released! Download latest, all Documentation Mailing List (Google...CovCal: Coverage / Read Count Calculator
By Jit 3082 days ago Comments (1)apps.bioconnector.virginia.edu - Coverage / Read Count Calculator Calculate how much sequencing you need to hit a target depth of coverage (or vice versa). Instructions: set the read length/configuration and genome size, then select what you want to calculate. Written by Stephen...HivePlot
By Jit 2836 days agohttp://www.hiveplot.com/ - The hive plot is a rational visualization method for drawing networks. Nodes are mapped to and positioned on radially distributed linear axes — this mapping is based on network structural properties. Edges are drawn as curved links....SVfinder: Tool for detecting genomic rearrangement form DNA-seq data
By Robert M Willioms 2535 days agogithub.com - SVfinder provides genome-wide detection of structural variants from next generation paired-end sequencing reads.
