johanneskoester
by Johannes Köster
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Packages
| Name | Latest Version | Summary | Updated | License |
|---|
| alpaca | 0.1.0 | ALPACA is a caller for genomic variants (single nucleotide and small indels) from next-generation sequencing data that uses a novel algebraic approach to incorporate sample based filtering into the calling. This allows to intuitively control the FDR for arbitrary filtering scenarios. | Mar 25, 2025 | MIT License |
| bcftools | 1.2 | Tools for dealing with BCF and VCF files | Mar 25, 2025 | MIT |
| bioconductor-rhdf5 | 2.26.0 | This package provides an interface between HDF5 and R. HDF5's main features are the ability to store and access very large and/or complex datasets and a wide variety of metadata on mass storage (disk) through a completely portable file format. The rhdf5 package is thus suited for the exchange of large and/or complex datasets between R and other software package, and for letting R applications work on datasets that are larger than the available RAM. | Mar 25, 2025 | Artistic-2.0 |
| bioconductor-rhdf5lib | 1.4.1 | Provides C and C++ hdf5 libraries. | Mar 25, 2025 | Artistic-2.0 |
| bwa | 0.7.12 | The BWA read mapper. | Mar 25, 2025 | MIT |
| cgat-report | 0.3.7 | A report generator in python based on sphinx | Mar 25, 2025 | BSD |
| mageck-vispr | 0.4.0 | MAGeCK-VISPR is a comprehensive quality control, analysis and visualization pipeline for CRISPR/Cas9 screens based on MAGeCK, VISPR, Snakemake and FastQC. | Mar 25, 2025 | MIT License |
| r-sleuth | 0.30.0 | Sleuth is an R library for analysis of RNA-Seq experiments for which transcript abundances have been quantified with kallisto. | Mar 25, 2025 | GPLv3 |
| rust-bio-tools | 0.18.1 | A growing collection of fast and secure command line utilities for dealing with NGS data implemented on top of Rust-Bio. | Mar 25, 2025 | MIT |
| samtools | 1.2 | Tools for dealing with SAM, BAM and CRAM files | Mar 25, 2025 | MIT |
| snakemake | 3.4.2 | Build systems like GNU Make are frequently used to create complicated workflows, e.g. in bioinformatics. This project aims to reduce the complexity of creating workflows by providing a clean and modern domain specific language (DSL) in python style, together with a fast and comfortable execution environment. | Mar 25, 2025 | MIT License |