Sequanix: a dynamic graphical interface for Snakemake workflows
A Python library dedicated to NGS analysis (e.g., tools to visualise standard NGS formats). A set of pipelines dedicated to NGS in the form of Snakefiles (Makefile-like with Python syn...1599 days ago
netGO: R-Shiny package for network-integrated pathway enrichment analysis
netGO is an R/Shiny package for network-integrated pathway enrichment analysis.netGO provides user-interactive visualization of enrichment analysis results and related networks....1598 days ago
SeqMule: Automated human exome/genome variants detection
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 configuration file.1592 days ago
LoFreq*: A sequence-quality aware, ultra-sensitive variant caller for NGS data
LoFreq* (i.e. LoFreq version 2) is a fast and sensitive variant-caller for inferring SNVs and indels from next-generation sequencing data. It makes full use of base-call qualities an...1592 days ago
BlobToolKit: A toolkit for genome assembly QC
Filtering raw genomic datasets is essential to avoid chimeric assemblies and to incre...emblies. BlobTools2 is a command-line program to convert assemblies and analysis results into datasets that ca...1590 days ago
Juicebox: Visualization and analysis software for Hi-C data
Juicebox is visualization software for Hi-C data. This distribution includes the source code for Juicebox, Juicer Tools, and Assembly Tools. Download Juic...1590 days ago
Best Practices for Variant Calling with the GATK
...version of Broad’s Genome Analysis Toolkit (GATK) was version 3.3. Genome Analysis Toolkit...o 03/19/15 Introduction to variant discovery: calling cohorts Lo...elson PDF Video 03/19/15 Variant calling and joint genotyping...1588 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 proteomics data. It is designed to be user-friendly, and has been opt...1563 days ago
1513 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 meta.... Tools in the dahak software suite will perform various steps in metagenomic analysis workflows including data pre-...1541 days ago