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RNAseq analysis notes from Ming Tang
Created
2015-08-26
322 commits to master branch, last one 2 years ago
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
Created
2018-03-29
4,505 commits to master branch, last one 5 months ago
🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
Created
2015-03-19
1,907 commits to master branch, last one 3 months ago
https://www.sc-best-practices.org
Created
2021-08-13
635 commits to master branch, last one 23 days ago
Tools to process and analyze deep sequencing data.
Created
2013-07-08
3,487 commits to master branch, last one 3 months ago
Near-optimal RNA-Seq quantification
Created
2014-11-13
1,271 commits to master branch, last one 7 months ago
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
Created
2022-11-22
290 commits to main branch, last one 14 days ago
NicheNet: predict active ligand-target links between interacting cells
Created
2018-02-05
465 commits to master branch, last one 27 days ago
An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
Created
2016-06-25
259 commits to master branch, last one 8 days ago
Customizable workflows based on snakemake and python for the analysis of NGS data
Created
2016-03-23
3,817 commits to master branch, last one 2 months ago
MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
Created
2015-03-30
3,679 commits to develop branch, last one 2 days ago
Differential analysis of RNA-Seq
Created
2015-02-13
661 commits to master branch, last one about a year ago
Table of software for the analysis of single-cell RNA-seq data.
Created
2016-09-09
3,607 commits to main branch, last one 19 days ago
zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
Created
2017-06-20
291 commits to main branch, last one about a year ago
minimal example implementations for bioinformatics workflow managers
Created
2020-09-14
142 commits to master branch, last one 2 years ago
This repository has no description...
Created
2021-11-29
115 commits to main branch, last one 23 days ago
Fast and accurate gene fusion detection from RNA-Seq data
Created
2017-10-23
694 commits to master branch, last one about a year ago
Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
Created
2019-08-06
118 commits to master branch, last one about a year ago
A single-cell RNAseq pipeline for 10X genomics data
Created
2019-04-08
1,401 commits to master branch, last one a day ago
Color blindness friendly visualization of single-cell and bulk RNA-sequencing data
Created
2019-02-18
828 commits to devel branch, last one about a month ago
Reference-guided transcript discovery and quantification for long read RNA-Seq data
Created
2020-02-07
2,144 commits to devel branch, last one 2 months ago
Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data
Created
2017-09-15
639 commits to master branch, last one about a month ago
🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.
Created
2020-07-15
800 commits to master branch, last one 3 months ago
RNA velocity estimation in Python
Created
2017-10-17
303 commits to master branch, last one 5 years ago
Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.
Created
2019-07-11
1,483 commits to master branch, last one 4 months ago
Fast, efficient RNA-Seq metrics for quality control and process optimization
Created
2017-08-10
407 commits to master branch, last one 10 days ago
Sequana: a set of Snakemake NGS pipelines
Created
2016-03-07
6,337 commits to main branch, last one 3 months ago
Finder of Somatic Fusion Genes in RNA-seq data
Created
2014-12-01
417 commits to master branch, last one about a year ago
Python library to access Gene Expression Omnibus Database (GEO)
Created
2015-08-16
238 commits to master branch, last one 2 months ago
Single cell analysis in the browser
Created
2021-12-02
321 commits to master branch, last one 2 months ago