Jit
Enthusiast computational biologist with business dream !!!
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RefKA: A fast and efficient long-read genome assembly approach for large and complex genomes
By Rahul Nayak 1700 days agogithub.com - RefKA, a reference-based approach for long read genome assembly. This approach relies on breaking up a closely related reference genome into bins, aligning k-mers unique to each bin with PacBio reads, and then assembling each bin in parallel...Published a dataset of 363 genomes from approximately 92 percent of bird families
By Jit 1498 days agoA research team published a dataset of 363 genomes from approximately 92 percent of bird families and showed the significance of sampling dense organisms for biodiversity research.OrthoVenn3: an integrated platform for exploring and visualizing orthologous data across genomes
By Abhi 604 days agoorthovenn3.bioinfotoolkits.net - OrthoVenn3 is a powerful tool for comparative genomics analysis, used as a web server for full genome comparisons, annotation, and evolutionary analysis of orthologous clusters across multiple species. It has already been used by thousands of users...Metagenomics assembly workshop !!
By Jit 2809 days agodenbi-metagenomics-workshop.readthedocs.io - Welcome to the one-day metagenomics assembly workshop. This tutorial will guide you through the typical steps of metagenome assembly and binning. The Tutorial Data Set FastQC Quality Control Assembly Velvet Assembly MEGAHIT...Mash: fast genome and metagenome distance estimation using MinHash
By Jit 2570 days agogithub.com - Mash is normally distributed as a dependency-free binary for Linux or OSX (see https://github.com/marbl/Mash/releases). This source distribution is intended for other operating systems or for development. Mash requires c++11 to build, which is...ProteoClade: A taxonomic toolkit for multi-species and metaproteomic analysis
By Jit 1743 days agogithub.com - ProteoClade is a Python library for taxonomic-based annotation and quantification of bottom-up proteomics data. It is designed to be user-friendly, and has been optimized for speed and storage requirements. ProteoClade helps you analyze two...Picard
By Neel 3163 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 3149 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 3140 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...
