Check strandedness of RNA-Seq fastq files
☆128Aug 30, 2022Updated 3 years ago
Alternatives and similar repositories for how_are_we_stranded_here
Users that are interested in how_are_we_stranded_here are comparing it to the libraries listed below
Sorting:
- IndexTools is a toolkit for extremely fast NGS analysis based on index files.☆17Aug 19, 2022Updated 3 years ago
- A Snakemake pipeline for quality control and reproducible processing of chromatin profiling data☆21May 24, 2021Updated 4 years ago
- ☆21Dec 26, 2025Updated 2 months ago
- R interface to megadepth: BigWig and BAM related utilities☆13Dec 12, 2024Updated last year
- Artisanal 🤣 bioinformatics tools and pipelines in Scala☆20Jan 28, 2020Updated 6 years ago
- Digital Expression Explorer 2 (DEE2): a repository of uniformly processed RNA-seq data☆40Feb 19, 2026Updated 2 weeks ago
- Merge fastq files split over lanes☆20Feb 13, 2018Updated 8 years ago
- A tool to find sequencing data and metadata from public databases.☆595Aug 13, 2024Updated last year
- An Integrated Analysis Pipeline for Unbiased ChIP seq Analysis☆22Oct 15, 2024Updated last year
- Detecting sites of genomic enrichment☆199May 8, 2023Updated 2 years ago
- BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy …☆73Dec 4, 2024Updated last year
- a lexicographically-based GTF/GFF sorter☆38Apr 27, 2025Updated 10 months ago
- kaamer - protein identification based on amino acid kmers☆12Mar 7, 2023Updated 3 years ago
- A lightweight reimplementation of some of the algorithms in the MEME suite in Python.☆28Feb 22, 2026Updated last week
- Library for visualising genomic features in Python.☆15May 12, 2017Updated 8 years ago
- ☆17Feb 20, 2026Updated 2 weeks ago
- parallel fastq-dump wrapper☆304Apr 26, 2023Updated 2 years ago
- ☆31Jul 8, 2025Updated 7 months ago
- Standard regression functions in R enabled for parallel processing over large data-frames.☆38Sep 24, 2023Updated 2 years ago
- sort genomic data☆36Nov 7, 2025Updated 3 months ago
- R package for detecting differential distributions using a statistical test based on the wasserstein distance☆27Nov 7, 2025Updated 3 months ago
- scRNA-seq data visualization from scrattch☆29Aug 20, 2025Updated 6 months ago
- Multi-sample transcriptome assembly from RNA-Seq☆25Jun 10, 2018Updated 7 years ago
- SUPPA: Fast quantification of splicing and differential splicing☆293Nov 6, 2025Updated 4 months ago
- GEO RNA-seq Experiments Processing Pipeline☆22Oct 25, 2019Updated 6 years ago
- Differential expression and allelic analysis, nonparametric statistics☆30Jan 3, 2025Updated last year
- Monet: An open-source Python package for analyzing scRNA-Seq data using PCA-based latent spaces☆40Sep 17, 2021Updated 4 years ago
- A flexible python program for generating figures from regions of the genome.☆13Apr 6, 2019Updated 6 years ago
- ☆11Oct 28, 2025Updated 4 months ago
- Subset of fast5 files contained in a fastq, BAM, or SAM file.☆12Mar 29, 2023Updated 2 years ago
- A tool for fast and accurate summarizing of variant calling format (VCF) files☆61Dec 27, 2022Updated 3 years ago
- reference-free transcriptome assembly for short and long reads☆108Jan 28, 2024Updated 2 years ago
- ⛰ covtobed | Convert the coverage track from a BAM file into a BED file☆44Nov 6, 2025Updated 4 months ago
- a pileup library that embraces the huge☆43Oct 2, 2020Updated 5 years ago
- Structural variant VCF annotation, duplicate removal and comparison☆36Oct 14, 2025Updated 4 months ago
- TELR is a fast non-reference transposable element detector from long read sequencing data.☆35Jul 27, 2023Updated 2 years ago
- FamDB file format library and utilities☆38Aug 27, 2025Updated 6 months ago
- genes and genomes at your fingertips☆408Sep 30, 2025Updated 5 months ago
- nucleosome calling using ATAC-seq☆110Dec 20, 2020Updated 5 years ago