A toolkit for NGS analysis with Python
☆14Jan 18, 2023Updated 3 years ago
Alternatives and similar repositories for toolkit
Users that are interested in toolkit are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Ultimate ATAC-seq Data Processing, Quantification and Annotation Snakemake Workflow and MrBiomics Module.☆102Nov 25, 2025Updated 8 months ago
- A Snakemake workflow and MrBiomics module for easy visualization of genome browser tracks of aligned BAM files (e.g., RNA-seq, ATAC-seq, …☆57Aug 5, 2025Updated last year
- Python package for writing flow cytometry standard (.fcs) files☆11Nov 9, 2025Updated 9 months ago
- Project metadata manager for biological sample metadata in Python☆40Updated this week
- CeMM's Snakemake SLURM cluster profile☆50Oct 8, 2025Updated 10 months ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- A Feature Density Estimator for High-Throughput Sequence Tags☆22May 25, 2021Updated 5 years ago
- Materials for short course on Bayesian inference at the Data Science Summer School☆13Jun 28, 2019Updated 7 years ago
- Tools used to analyze data from nanopore-based experiments.☆31Feb 1, 2015Updated 11 years ago
- A Snakemake workflow and MrBiomics module to split, filter, normalize, integrate and select highly variable features of count matrices re…☆54Jan 9, 2026Updated 7 months ago
- FAIR Genomes semantic metadata model. The core is a YAML file, which is transformed into all other desired output formats.☆13Nov 5, 2025Updated 9 months ago
- Quality control plotting for long reads☆10May 14, 2024Updated 2 years ago
- A Snakemake workflow and MrBiomics module for performing and visualizing differential analyses of NGS data powered by the R package limma…☆64Mar 24, 2026Updated 4 months ago
- FlowUtils is a Python package containing various utility functions related to flow cytometry analysis, primarily focused on compensation …☆21Nov 4, 2025Updated 9 months ago
- Reference Genome Independent Differential DNA Methylation Analysis☆11Aug 19, 2021Updated 4 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Pipelines for NGS data preprocessing by the Bock lab and friends☆21Aug 29, 2022Updated 3 years ago
- Scripts for Hill et al. (2022) doi:10.1093/molbev/msac085 🟣☆11Apr 28, 2023Updated 3 years ago
- A Snakemake workflow and MrBiomics module for performing genomic region set and gene set enrichment analyses using LOLA, GREAT, GSEApy, p…☆77Updated this week
- Scripts for the analysis of TT-seq and DRB/TT-seq data.☆12Mar 11, 2020Updated 6 years ago
- Python toolkit for building restartable pipelines☆48Mar 6, 2026Updated 5 months ago
- GOMCL: a toolkit to cluster, evaluate, and extract non-redundant associations of Gene Ontology-based functions☆22Sep 5, 2023Updated 2 years ago
- Complements Minimap2 for a fast and efficient Read-Until pipeline☆14Mar 21, 2023Updated 3 years ago
- Scripts used to generate the data/figures contained in "Single Cell Transcriptomics Reveals Cell Type Specific Diversification in Human H…☆15Mar 10, 2023Updated 3 years ago
- A method for calculating single cell entropy and reconstructing cell differentiation lineage using single-cell RNA-seq data☆10May 26, 2023Updated 3 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Reproducibility for the "Harmonization and Annotation of Single-cell Transcriptomics data with Deep Generative Models" paper☆13Jul 15, 2022Updated 4 years ago
- a simulator of long read sequencing in pacbio and oxford nanopore☆15Oct 13, 2016Updated 9 years ago
- Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.☆114Nov 3, 2025Updated 9 months ago
- RNA-Seq pipeline☆36Jul 22, 2015Updated 11 years ago
- Locate transgenic insertion sites☆11Mar 14, 2023Updated 3 years ago
- Jupyter Notebook to demonstrate the use of Neural Networks for Transcription Factor Binding Site Prediction☆13Jun 20, 2017Updated 9 years ago
- Code used for mouse single cell RNAseq testis atlas☆12Nov 28, 2020Updated 5 years ago
- Overview of the machine learning project and various sub-tasks.☆10Jul 24, 2026Updated 2 weeks ago
- A pipeline for the identification of Compound Heterozygous Variants☆10Nov 10, 2022Updated 3 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Genome databases generation pipeline for ngs.plot and region_analysis.☆17Sep 8, 2015Updated 10 years ago
- Additional tools for analyzing Oxford Nanopore minION data☆17Jul 24, 2015Updated 11 years ago
- Phenotype detection in pooled genetic perturbation screens☆12Mar 13, 2024Updated 2 years ago
- My bioinfo toolbox☆50Feb 6, 2025Updated last year
- R package for gene selection using k-NN graphs.☆14Jun 12, 2023Updated 3 years ago
- GenomeTools: Scripts and Classes for Working with Genomic Data☆12Jun 7, 2018Updated 8 years ago
- Script for downloading GitHub.☆13Sep 24, 2020Updated 5 years ago