| Package Name | Access | Summary | Updated |
|---|---|---|---|
| r-calder2 | public | CALDER is a Hi-C analysis tool for the analysis of hierarchical chromatin interactions | 2025-04-22 |
| pavfinder | public | PAVFinder is a Python package that detects structural variants from de novo assemblies. | 2025-04-22 |
| flexserv | public | FlexServ protein structure conformational ensemble generation tools | 2025-04-22 |
| pybmtools | public | A python extension written in C for quick access to DNA methylation BM files. | 2025-04-22 |
| phamb | public | phamb discovery approach used to isolate metagenome derived viromes and High-quality viral genomes | 2025-04-22 |
| vase | public | Variant Annotation, Segregation and Exclusion for family or cohort based rare-disease sequencing studies | 2025-04-22 |
| parse-vcf | public | Variant Call Format parser and convenience methods | 2025-04-22 |
| etoki | public | EToKi (Enterobase Tool Kit) includes methods related to Enterobase data analysis pipelines | 2025-04-22 |
| contammix | public | estimation of mtDNA contamination from a set of potential contaminant genomes. | 2025-04-22 |
| vgan | public | Suite of tools for pangenomics built using vg | 2025-04-22 |
| safesim | public | SafeSeqS variant simulator | 2025-04-22 |
| pango_aliasor | public | Pango lineage aliasing and dealiasing | 2025-04-22 |
| segzoo | public | System for turnkey analysis of semi-automated genome annotations | 2025-04-22 |
| phiercc | public | Hierarchical Clustering of cgMLST profiles | 2025-04-22 |
| hap-ibd | public | Hap-ibd Detects identity-by-descent (IBD) segments and homozygosity-by-descent (HBD) segments in phased genotype data. | 2025-04-22 |
| straindesign | public | Library to perform metabolic engineering tasks | 2025-04-22 |
| stag | public | A hierarchical taxonomic classifier for metagenomic sequences | 2025-04-22 |
| phip-stat | public | PhIP-seq analysis tools | 2025-04-22 |
| concoord | public | CONCOORD is a method to generate protein conformations around a known structure based on geometric restrictions. | 2025-04-22 |
| fgsv | public | Tools to find evidence for structural variation. | 2025-04-22 |
| irescue | public | A tool to quantify transposable elements expression in scRNA-seq. | 2025-04-22 |
| maelstrom-core | public | Rust utilities for NGS data processing. | 2025-04-22 |
| qhery | public | Identification of mutations in SARS-CoV-2 associated with resistance to treatment. | 2025-04-22 |
| mummer2circos | public | Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments | 2025-04-22 |
| hapog | public | Haplotype-Aware Polishing of Genomes | 2025-04-22 |
