| Package Name | Access | Summary | Updated |
|---|---|---|---|
| mapdamage2 | public | mapDamage: tracking and quantifying damage patterns in ancient DNA sequencing reads generated by Next-Generation Sequencing platforms. | 2025-07-16 |
| automappa | public | Automappa: An interactive interface for exploration of metagenomes. | 2025-07-15 |
| famsa | public | Algorithm for large-scale multiple sequence alignments. | 2025-07-15 |
| kleborate | public | Kleborate: a tool for typing and screening pathogen genome assemblies. | 2025-07-15 |
| seqnado | public | Pipelines for genomics analysis | 2025-07-15 |
| amdirt | public | amdirt: AncientMetagenomeDir Toolkit | 2025-07-15 |
| hgtools | public | Classes for Mercurial and Git repositories. | 2025-07-15 |
| tb-profiler | public | Profiling tool for Mycobacterium tuberculosis to detect drug resistance and lineage from sequencing data | 2025-07-15 |
| hits | public | Utilities for processing high-throughput sequencing experiments. | 2025-07-15 |
| gffcompare | public | GffCompare by Geo Pertea. | 2025-07-15 |
| biocommons.seqrepo | public | Python package for writing and reading a local collection of biological sequences. | 2025-07-15 |
| ebolaseq | public | Tool for downloading and analyzing Ebola virus sequences. | 2025-07-15 |
| aci | public | Visualizes coverage for amplicons. | 2025-07-15 |
| geofetch | public | Downloads data and metadata from GEO and SRA and creates standard PEPs. | 2025-07-15 |
| perl-inline | public | Write Perl Subroutines in Other Programming Languages. | 2025-07-15 |
| synapseclient | public | Python client for Synapse. | 2025-07-15 |
| bioconductor-alabaster.matrix | public | Load and Save Artifacts from File | 2025-07-15 |
| pathogen-profiler | public | Library giving access to classes and functions to create a profiling tool to look for mutations from NGS data. | 2025-07-15 |
| bioconductor-alabaster.base | public | Save Bioconductor Objects To File | 2025-07-15 |
| svync | public | A tool to standardize VCF files from structural variant callers | 2025-07-15 |
| r-rblast | public | Seamlessly interfaces the Basic Local Alignment Search Tool (BLAST) to search genetic sequence data bases. This work was partially supported by grant no. R21HG005912 from the National Human Genome Research Institute. | 2025-07-15 |
| piscem | public | piscem is a next-generation compacted colored de Bruijn Graph-based indexer and mapper | 2025-07-15 |
| ucsc-hgloadbed | public | Load a generic bed file into database. | 2025-07-15 |
| ucsc-hgspeciesrna | public | Create fasta file with RNA from one species. | 2025-07-15 |
| bindash | public | Fast and precise comparison of genomes and metagenomes (in the order of terabytes) on a typical personal laptop. | 2025-07-14 |
