| Package Name | Access | Summary | Updated |
|---|---|---|---|
| virdig | public | A de novo transcriptome assembler for coronavirus. | 2025-04-22 |
| equirep | public | EquiRep is tool to identify tandem repeats. | 2025-04-22 |
| mmft | public | Max's minimal fasta toolkit | 2025-04-22 |
| opticlust | public | Single cell clustering and recommendations at a glance. | 2025-04-22 |
| optilcms | public | Pipeline for processing LC-MS raw data with optimized parameters. | 2025-04-22 |
| phytop | public | Phytop: A tool for visualizing and recognizing signals of incomplete lineage sorting and hybridization using species trees output from ASTRAL | 2025-04-22 |
| sc-musketeers | public | A tri-partite modular autoencoder for addressing imbalanced cell type annotation and batch effect reduction | 2025-04-22 |
| drug2cell | public | This is a collection of utility functions for gene group activity evaluation in scanpy | 2025-04-22 |
| genera | public | Uncovering gene-family founder events during major evolutionary transitions in animals, plants and fungi using GenEra | 2025-04-22 |
| tipp | public | TIPPo: A User-Friendly Tool for De Novo Assembly of Organellar Genomes with HiFi Data | 2025-04-22 |
| snp2cell | public | A package for finding enriched regulatory networks from GWAS and single cell data. | 2025-04-22 |
| vgorient | public | Scripts for processing mitochondrial graphs. | 2025-04-22 |
| ntsm | public | ntsm - Nucleotide Sequence/Sample Matcher | 2025-04-22 |
| absense | public | abSENSE: a method to interpret undetected homologs | 2025-04-22 |
| hifiadapterfilt | public | Convert .bam to .fastq and remove reads with remnant PacBio HiFi adapter sequences | 2025-04-22 |
| panta | public | PanTA - pan-genome pipeline | 2025-04-22 |
| ega-cryptor | public | EGA Cryptor v2.0.0 is a tool designed to encrypt files compliant with the European Genome-phenome Archive (EGA) | 2025-04-22 |
| wipertools | public | A suite of programs that drop or fix pesky lines in FASTQ files and that split FASTQ files into chunks or merge them. | 2025-04-22 |
| sprinter | public | Single-cell Proliferation Rate Inference in Non-homogeneous Tumours through Evolutionary Routes (SPRINTER) | 2025-04-22 |
| neptune-signature | public | Neptune: Genomic Signature Discovery | 2025-04-22 |
| search_ncbi | public | A package for searching and processing NCBI data | 2025-04-22 |
| snpick | public | A fast and memory-efficient tool for SNP extraction from genomic alignments. | 2025-04-22 |
| mzpaf | public | HUPO-PSI Peptide peak annotation format | 2025-04-22 |
| gretl | public | gretl is a tool to compute a range of statistics on variation graphs in gfa format. | 2025-04-22 |
| r-locuszoomr | public | Publication-ready regional gene locus plots similar to those produced by the web interface 'LocusZoom' <https://my.locuszoom.org>, but running locally in R. Genetic or genomic data with gene annotation tracks are plotted via R base graphics, 'ggplot2' or 'plotly', allowing flexibility and easy customisation including laying out multiple locus plots on the same page. It uses the 'LDlink' API <https://ldlink.nih.gov/?tab=apiaccess> to query linkage disequilibrium data from the 1000 Genomes Project and can overlay this on plots. | 2025-04-22 |
