| Package Name | Access | Summary | Updated |
|---|---|---|---|
| ucsc-pslcheck | public | Validate PSL files. | 2025-06-25 |
| ucsc-nibfrag | public | Extract part of a nib file as .fa (all bases/gaps lower case by default). | 2025-06-25 |
| ucsc-bigwigtowig | public | Convert bigWig to wig. This will keep more of the same structure of the original wig than bigWigToBedGraph does, but still will break up large stepped sections into smaller ones. | 2025-06-25 |
| celltypist | public | A tool for semi-automatic cell type annotation. | 2025-06-25 |
| poseidon-trident | public | A tool (trident) to work with modular genotype databases formatted using Poseidon. | 2025-06-25 |
| crossmap | public | CrossMap is a program for convenient conversion of genome coordinates and genomeannotation files between assemblies. | 2025-06-25 |
| ltr_retriever | public | Sensitive and accurate identification of LTR retrotransposons | 2025-06-25 |
| voronota | public | Compute Voronoi diagram vertices for macromolecular structures | 2025-06-25 |
| eklipse | public | eKLIPse is a sensitive and specific tool allowing the detection and quantification of large mtDNA rearrangements. | 2025-06-25 |
| dendropy | public | A Python library for phylogenetics and phylogenetic computing: reading, writing, simulation, processing and manipulation of phylogenetic trees (phylogenies) and characters. | 2025-06-25 |
| beav | public | beav: Bacterial genome and mobile element annotation pipeline | 2025-06-25 |
| demultiplex | public | Demultiplex any number of FASTA or a FASTQ files based on a list of barcodes | 2025-06-25 |
| shortcut | public | ShortCut Small RNA-seq data trimmer and quality control tool | 2025-06-25 |
| lepwrap | public | The Snakemake pipeline to use Lep-Map3 to create linkage maps and LepAnchor for anchoring+orienting genome assemblies. | 2025-06-25 |
| mi-pimento | public | A PrIMEr infereNce TOolkit to facilitate large-scale calling of metabarcoding amplicon sequence variants. | 2025-06-25 |
| pybascule | public | Bayesian NMF signatures deconvolution and DP clustering. | 2025-06-25 |
| strainr2 | public | StrainR2 accurately deconvolutes strain-level abundances in synthetic microbial communities using metagenomic sequencing reads | 2025-06-25 |
| ucsc-fasplit | public | Split an fa file into several files. | 2025-06-25 |
| ucsc-fasomerecords | public | Extract multiple fa records. | 2025-06-25 |
| ucsc-bigwigsummary | public | Extract summary information from a bigWig file. | 2025-06-25 |
| learnmsa | public | learnMSA: Learning and Aligning large Protein Families | 2025-06-25 |
| kneaddata | public | KneadData is a tool designed to perform quality control on metagenomic sequencing data. | 2025-06-25 |
| irida-uploader | public | Upload NGS data to IRIDA system. | 2025-06-25 |
| dampa | public | DAMPA designs probes for use in targetted metagenomics. It leverages pangenome graphs to increase speed and accuracy. | 2025-06-25 |
| biobb_godmd | public | Biobb_godmd is a BioBB category for GOdMD tool (protein conformational transitions). | 2025-06-25 |
