COMBINE-lab / alevin-fry
🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.
☆179Updated last month
Alternatives and similar repositories for alevin-fry:
Users that are interested in alevin-fry are comparing it to the libraries listed below
- Single-Cell Genotyping Tool☆203Updated last year
- recipes that save time☆132Updated this week
- mgatk: mitochondrial genome analysis toolkit☆107Updated 2 months ago
- kallisto | bustools workflow for pre-processing single-cell RNA-seq data☆117Updated 2 years ago
- Efficient genotyping bi-allelic SNPs on single cells☆143Updated 9 months ago
- Ultrafast DNA methylation heterogeneity calculation from bisulfite alignments (Lee et al., PLOS Computational Biology. 2023)☆47Updated last year
- ☆72Updated last year
- A (mostly) universal methylation extractor for BS-seq experiments.☆170Updated 9 months ago
- Fast alignment and preprocessing of chromatin profiles☆197Updated 4 months ago
- SUPPA: Fast quantification of splicing and differential splicing☆273Updated 9 months ago
- Convert 10x BAM files to the original FASTQs compatible with 10x pipelines☆62Updated 2 weeks ago
- SEACR: Sparse Enrichment Analysis for CUT&RUN☆108Updated 2 years ago
- Tools for single-cell data processing☆123Updated 10 months ago
- RNA-seq analysis pipeline for detection of gene-fusions☆152Updated this week
- AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and …☆144Updated 9 months ago
- Cromwell/WDL wrapper for Python☆55Updated last year
- Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.☆108Updated 4 months ago
- FAN-C: Framework for the ANalysis of C-like data☆110Updated last year
- zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs☆278Updated 8 months ago
- Clustering scRNAseq by genotypes☆177Updated 4 months ago
- Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)☆161Updated this week
- A rust framework to make using alevin-fry even simpler☆54Updated last month
- HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.☆101Updated 4 months ago
- TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files☆129Updated 9 months ago
- Analysis of Chromosome Conformation Capture data (Hi-C)☆99Updated 2 months ago
- chromatin Variability Across Regions (of the genome!)☆172Updated 8 months ago
- Fast and accurate in silico inference of HLA genotypes from RNA-seq☆127Updated 7 months ago
- TCR and BCR assembly from RNA-seq data☆299Updated 3 weeks ago
- Full-length transcriptome splicing and mutation analysis☆81Updated 9 months ago
- ASCAT R package☆179Updated 3 weeks ago