hvbakel
by hvbakel
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Packages
| Name | Latest Version | Summary | Updated | License |
|---|
| amplicon_sorter | 1.1.1 | Conda package for amplicon_sorter, https://github.com/avierstr/amplicon_sorter. | Dec 22, 2025 | GNU GPL 3.0 |
| azimuth-transfer-tool | 1.2 | Azimuth dual-reference transfer with Bioconductor dependency resolution. | Dec 21, 2025 | — |
| cirrocumulus | 1.1.61 | — | Dec 22, 2025 | — |
| isopropeller | 1.9.2 | Code for isoPropeller isoform analysis. | Nov 30, 2025 | Attribution-NonCommercial 4.0 International |
| minerva-queue-lsf | 1.0 | Collection of scripts to make it easier to interact with the queueing system on the Icahn School of Medicine 'Minerva' cluster. | Mar 25, 2025 | MIT |
| omics-bintools | 1.0 | Static builds of various bioinformatics utilities. | Aug 3, 2025 | Various open-source and restricted licenses |
| omics-megena | 1.0 | Wrapper scripts for megena co-expression network analyses. | Mar 25, 2025 | MIT |
| omics-pipelines | 1.1 | Pipelines to analyze different types of genomics data. | Aug 17, 2025 | MIT |
| omics-splicing | 1.0 | Wrapper scripts for differential splicing analyses. | Mar 25, 2025 | MIT |
| omics-toolkit | 1.3 | Collection of scripts and utilities to analyze various types of 'omics data. | Aug 17, 2025 | MIT |
| omics-ucsc-utils | 2024_09 | Static build of kent ucsc-utils. | Mar 25, 2025 | MIT |
| r-connectpdb | 1.2.7 | Database connector functions for PathogenDB and PSP | Mar 19, 2026 | MIT |
| r-dropletqc | 0.0.0.9000 | This simple R package can be used to calculate a useful QC metric for single cell RNA-seq datasets generated with the 10x Genomics Chromium Single Cell Gene Expression platform: the nuclear fraction score. This score captures, for each input cell barcode, the fraction of RNA that likely originated from unspliced (nuclear) pre-mRNA. Sheared cell membranes from damaged cells in the input cell suspension primarily release cytoplasmic RNA into solution, while the nuclear envelope remains intact. As a result, RNA released from stressed or damaged cells consists mostly of mature cytoplasmic mRNA and is relatively depleted of unspliced nuclear precursor mRNA. This fact can be useful in identifying both; droplets containing only ambient RNA, characterised by a low nuclear fraction score, and damaged cells, which can be identified by a high score. The QC metric is calculated by parsing the input barcoded BAM file for CB and RE flags added by 10x Genomics' Cell Ranger software. | Mar 25, 2025 | MIT |
| scrinvex | 0.1.0 | SCRINVEX - A Single Cell RNA-Seq QC tool | Dec 30, 2025 | BSD-3-Clause |
| scrnaseq-anndata-utils | 1.2.7 | Utilities for handling scRNAseq AnnData objects. | Mar 18, 2026 | — |
| symphonypy | 0.2.2 | — | Dec 21, 2025 | — |