| Package Name | Access | Summary | Updated |
|---|---|---|---|
| ucsc-twobitdup | public | check to see if a twobit file has any identical sequences in it | 2025-06-27 |
| axe-demultiplexer | public | Rapid competitive read demulitplexer. Made with tries. | 2025-06-27 |
| ucsc-xmltosql | public | Convert XML dump into a fairly normalized relational database. | 2025-06-27 |
| ucsc-twobitmask | public | Apply masking to a .2bit file, creating a new .2bit file. | 2025-06-27 |
| ucsc-wigcorrelate | public | Produce a table that correlates all pairs of wigs. | 2025-06-27 |
| ucsc-validatemanifest | public | Validates the ENCODE3 manifest.txt file. | 2025-06-27 |
| ucsc-toupper | public | Convert lower case to upper case in file. Leave other chars alone. | 2025-06-27 |
| ucsc-validatefiles | public | Validates the format of different genomic files. | 2025-06-27 |
| ucsc-trfbig | public | Mask tandem repeats on a big sequence file. | 2025-06-27 |
| ucsc-transmappsltogenepred | public | Convert PSL alignments of mRNAs to gene annotations. | 2025-06-27 |
| ucsc-wordline | public | Chop up words by white space and output them with one. | 2025-06-27 |
| emvc-2 | public | An efficient SNV variant caller based on the expectation maximization algorithm. | 2025-06-27 |
| fgap | public | FGAP: an automated gap closing tool | 2025-06-27 |
| bioconductor-illuminahumanmethylationepicv2manifest | public | Manifest for Illumina's EPIC v2.0 methylation arrays | 2025-06-27 |
| bioconductor-data-packages | public | A package to enable downloading and installation of Bioconductor data packages | 2025-06-27 |
| bioconductor-illuminahumanmethylationepicv2anno.20a1.hg38 | public | Annotation for Illumina's EPIC v2.0 methylation arrays | 2025-06-27 |
| rmlst_api | public | Python package to perform rMLST through the PubMLST API. | 2025-06-27 |
| fastq-and-furious | public | Fast handling of FASTQ files | 2025-06-27 |
| ucsc-psltobigpsl | public | Converts psl to bigPsl input (bed format with extra fields). | 2025-06-27 |
| ucsc-fetchchromsizes | public | Used to fetch chrom.sizes information from UCSC for the given <db>. | 2025-06-27 |
| ucsc-tolower | public | Convert upper case to lower case in file. Leave other chars alone. | 2025-06-27 |
| vpt-plugin-cellpose2 | public | Cellpose2 plugin for the Vizgen Post-processing Tool | 2025-06-27 |
| last | public | LAST finds & aligns related regions of sequences. | 2025-06-27 |
| blastbesties | public | Rapid discovery of reciprocal best blast pairs from BLAST output files. | 2025-06-27 |
| ucsc-matrixclustercolumns | public | Group the columns of a matrix into clusters, and output a matrix with the same number of rows and generally much fewer columns. Combines columns by taking mean. | 2025-06-27 |
