broad-viral
by Broad Viral
Custom packages for the viral-ngs pipeline from Broad Institute's Sabeti Lab
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Packages
| Name | Latest Version | Summary | Updated | License |
|---|
| apsp | V0 | String Overlap Finder | Mar 25, 2025 | GPLv2 |
| cromwell-tools | 1.0.1 | Utilities for interacting with the Cromwell workflow engine | Mar 25, 2025 | BSD |
| dominate | 2.4.0 | Dominate is a Python library for creating and manipulating HTML documents using an elegant DOM API. | Jun 16, 2023 | LGPL 3.0 |
| dsub | 0.2.4 | A command-line tool that makes it easy to submit and run batch scripts in the cloud | Mar 25, 2025 | Apache Software |
| gap2seq | 3.1.1a2 | Gap2Seq is a tool for filling gaps between contigs in genome assemblies. | Mar 25, 2025 | GPL-3.0 |
| genometools-genometools | 1.5.10 | GenomeTools genome analysis system. | Mar 25, 2025 | BSD |
| git-annex-remote-ldir | 0.0.1 | git annex external special remote for local dirs | Mar 25, 2025 | MIT |
| kaiju | 1.6.3_yesimon | Fast and sensitive taxonomic classification for metagenomics | Mar 25, 2025 | GNU GPL v3 |
| kmc | 3.1.0rc1 | K-mer Counter is a utility designed for counting k-mers (sequences of consecutive k symbols) in a set of reads from genome sequencing projects. | Jun 16, 2023 | GPLv2 |
| kraken | 1.0.0_fork4 | Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies. | Mar 25, 2025 | GPLv3 |
| kraken2 | 2.0.7_beta_yesimon | Kraken is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies. | Mar 25, 2025 | GPLv3 |
| krakenuniq | 0.5.7_yesimon | Metagenomics classifier with unique k-mer counting for more specific results | Mar 25, 2025 | GPLv3 |
| ncbitax | 0.1.2 | Python API for working with NCBI taxonomy db | Mar 25, 2025 | MIT |
| pehaplo | v0.1_dev05 | Quasispecies assembler that uses paired-read information | Mar 25, 2025 | GPLv2 |
| trinity | date.2011_11_26 | Trinity assembles transcript sequences from Illumina RNA-Seq data | Mar 25, 2025 | https://raw.githubusercontent.com/trinityrnaseq/trinityrnaseq/master/LICENSE.txt |
| viral-ngs | 1.25.0 | A set of scripts and tools for the analysis of viral NGS data | Mar 25, 2025 | https://raw.githubusercontent.com/broadinstitute/viral-ngs/master/LICENSE |
| viral-ngs-dev | 1.23.0+dev95_ga652f04_ct_update_picard_2.20.3 | A set of scripts and tools for the analysis of viral NGS data | Mar 25, 2025 | https://raw.githubusercontent.com/broadinstitute/viral-ngs/master/LICENSE |