| Package Name | Access | Summary | Updated |
|---|---|---|---|
| ucsc-maskoutfa | public | Produce a masked .fa file given an unmasked .fa and. | 2025-06-29 |
| cnvkit | public | Copy number variant detection from high-throughput sequencing. | 2025-06-29 |
| bioconductor-dmrcate | public | Methylation array and sequencing spatial analysis methods | 2025-06-29 |
| ucsc-fafrag | public | Extract a piece of DNA from a .fa file. | 2025-06-29 |
| ucsc-maffetch | public | Get overlapping records from an MAF using an index table. | 2025-06-29 |
| ucsc-gmtime | public | Convert unix timestamp to date string. | 2025-06-29 |
| ucsc-chainsort | public | Sort chains. By default sorts by score. | 2025-06-29 |
| ucsc-maketablelist | public | Create/recreate tableList tables (cache of SHOW TABLES and DESCRIBE). | 2025-06-29 |
| ucsc-maffilter | public | Filter out maf files. Output goes to standard out. | 2025-06-29 |
| ucsc-hgloadnet | public | Load a generic net file into database. | 2025-06-29 |
| ucsc-bigwigmerge | public | Merge together multiple bigWigs into a single output bedGraph. | 2025-06-29 |
| ucsc-hubpubliccheck | public | Checks that the labels in hubPublic match what is in the hub labels. | 2025-06-29 |
| ucsc-maffrag | public | Extract maf sequences for a region from database. | 2025-06-29 |
| ucsc-hgfindspec | public | Create hgFindSpec table from trackDb.ra files. | 2025-06-29 |
| ucsc-chainprenet | public | Remove chains that don't have a chance of being netted. | 2025-06-29 |
| ucsc-rmfadups | public | Remove duplicate records in FA file. | 2025-06-29 |
| ucsc-spacedtotab | public | Convert fixed width space separated fields to tab separated. | 2025-06-29 |
| ucsc-splitfilebycolumn | public | Split text input into files named by column value. | 2025-06-29 |
| ucsc-netfilter | public | Filter out parts of net. What passes. | 2025-06-29 |
| ucsc-checkhgfindspec | public | Test and describe search specs in hgFindSpec tables. | 2025-06-29 |
| ucsc-fatotab | public | Convert fa file to tab separated file. | 2025-06-29 |
| ucsc-subcolumn | public | Substitute one column in a tab-separated file. | 2025-06-29 |
| ucsc-fapolyasizes | public | Get poly A sizes. | 2025-06-29 |
| ucsc-fanoise | public | Add noise to .fa file. | 2025-06-29 |
| ucsc-nettobed | public | Convert target coverage of net to a bed file. | 2025-06-29 |
