Best Practices for Variant Calling with the GATK
The presentations below were filmed during the March 2015 GATK Workshop, part of the BroadE Workshop series. At the time of this workshop, the current version of Broad&r...1589 days ago
ProteoClade: A taxonomic toolkit for multi-species and metaproteomic analysis
ProteoClade is a Python library for taxonomic-based annotation and quantification of bottom-up proteomi...1563 days ago
tinycov: standalone command line utility written in python to plot coverage from a BAM file
Tinycov is a small standalone command line utility written in python to plot the coverage of a BAM file quickly. This software was inspired by Matt Edw...1559 days ago
Dahak: benchmarking and containerization of tools for analysis of complex non-clinical metagenomes.
Dahak is a software suite that integrates state-of-the-art open source tools for metagenomic analyses. Tools in the dahak software suite will perform various st...1542 days ago
GRIDSS: the Genomic Rearrangement IDentification Software Suite
GRIDSS is a module software suite containing tools useful for the detection of genomic rearrangements. GRIDSS includes a genome-wide break-end assembler, as well as a structural...1504 days ago
Genobuntu: Package for Next Generation Sequencing and Genome Assembly
Genobuntu is a software package containing more than 70 software and packages oriented towards NGS. In it...assembly tools.Commonly used biological software and example script files for...mount of time and energy needed to build software workstations and it can also...1502 days ago
Supernova: generates phased, whole-genome de novo assemblies from a Chromium-prepared library.
Supernova generates phased, whole-genome de novo assemblies from a Chromium-prepared library. Please see Achieving Success with De Novo Assembly and...1490 days ago
1473 days ago
SEASTAR: Systematic Evaluation of Alternative STArt site in RNA
SEASTAR (Systematic Evaluation of Alternative STArt site in RNA) is a software package for Transcription Start Site (T...tifying differential promoter utilization. version 1.0.0 - updates several descriptions and tests. To ach...1416 days ago
proActiv: Estimation of Promoter Activity from RNA-Seq data
proActiv is an R package that estimates promoter activity from RNA-Seq data. proActiv us...ICGC, GTEx, and PCAWG can be downloaded here: https://jglab.org/data-and-software/1416 days ago