| Package Name | Access | Summary | Updated |
|---|---|---|---|
| evidencemodeler | public | Evidence Modeler combines ab intio gene predictions, protein alignments, and transcript alignments into weighted consensus gene structures | 2025-05-29 |
| beagle-lib | public | general purpose library for evaluating the likelihood of sequence evolution on trees | 2025-05-29 |
| rtg-tools | public | RealTimeGenomics Tools -- Utilities for accurate VCF comparison and manipulation. | 2025-05-29 |
| entrez-direct | public | Entrez Direct (EDirect) is an advanced method for accessing the NCBI's set of interconnected databases (publication, sequence, structure, gene, variation, expression, etc.) from a UNIX terminal window. Functions take search terms from command-line arguments. Individual operations are combined to build multi-step queries. Record retrieval and formatting normally complete the process. | 2025-05-28 |
| mcl | public | MCL - a cluster algorithm for graphs | 2025-05-28 |
| r-sleuth | public | Tools for investigating RNA-Seq. | 2025-05-28 |
| metabat2 | public | Metagenome binning. | 2025-05-28 |
| arvados-python-client | public | Python API for Arvados | 2025-05-28 |
| cutadapt | public | Trim adapters from high-throughput sequencing reads | 2025-05-28 |
| salmon | public | Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment | 2025-05-28 |
| smallgenomeutilities | public | A collection of scripts that are useful for dealing with viral RNA NGS data. | 2025-05-28 |
| kat | public | KAT is a suite of tools that analyse jellyfish hashes or sequence files (fasta or fastq) using kmer counts | 2025-05-27 |
| deepvariant | public | DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data. | 2025-05-24 |
| perl-devel-size | public | Perl extension for finding the memory usage of Perl variables | 2025-05-24 |
| shortstack | public | ShortStack: Comprehensive annotation and quantification of small RNA genes | 2025-05-24 |
| pyseer | public | Sequence Element Enrichment Analysis (SEER), python implementation. | 2025-05-22 |
| ucsc-cell-browser | public | A browser for single-cell data, main site at http://cells.ucsc.edu. UCSC Cellbrowser, an interactive browser for single cell data. Includes importers and basic pipelines for text files, Seurat, Scanpy and Cellranger. All Javascript - does not require a server backend. | 2025-05-22 |
| meme | public | Motif-based sequence analysis tools. | 2025-05-20 |
| vcflib | public | Command-line tools for manipulating VCF files. | 2025-05-19 |
| bamtools | public | C++ API & command-line toolkit for working with BAM data. | 2025-05-18 |
| perl-vcftools-vcf | public | cpanm ready distribution of VCFtools Perl libraries | 2025-05-15 |
| vcftools | public | A set of tools written in Perl and C++ for working with VCF files. | 2025-05-15 |
| picrust2 | public | PICRUSt: Phylogenetic Investigation of Communities by Reconstruction of Unobserved States | 2025-05-14 |
| fido | public | No Summary | 2025-05-13 |
| bwa | public | The BWA read mapper. | 2025-05-13 |
