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Single-cell analysis in Python. Scales to >1M cells.
Created
2017-01-29
3,397 commits to main branch, last one a day ago
An interactive explorer for single-cell transcriptomics data
Created
2017-10-03
1,571 commits to main branch, last one 2 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 16 days ago
Annotated data.
Created
2017-08-11
1,311 commits to main branch, last one a day ago
pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regula...
Created
2018-03-07
670 commits to master branch, last one 2 months ago
Fusing Histology and Genomics via Deep Learning - IEEE TMI
Created
2019-12-14
46 commits to master branch, last one about a year ago
Single cell perturbation prediction
Created
2018-11-28
422 commits to master branch, last one 9 months ago
The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:
Created
2012-11-02
8,912 commits to master branch, last one 4 months ago
R/shiny interface for interactive visualization of data in SummarizedExperiment objects
Created
2017-12-06
3,225 commits to devel branch, last one 27 days ago
starfish: unified pipelines for image-based transcriptomics
Created
2017-05-26
1,432 commits to master branch, last one 7 months 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
R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
Created
2017-04-25
1,483 commits to main branch, last one 4 months ago
Differential expression analysis for single-cell RNA-seq data.
Created
2018-07-02
478 commits to master branch, last one about a year ago
R package for analyzing single-cell RNA-seq data
Created
2015-05-06
157 commits to main branch, last one about a year 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
Brings bulk and pseudobulk transcriptomics to the tidyverse
Created
2019-08-28
1,458 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
A list of web-based interactive biological data visualizations.
Created
2018-05-27
77 commits to main branch, last one 3 years ago
Python package to perform enrichment analysis from omics data.
Created
2021-11-16
584 commits to main branch, last one 8 days ago
An ontology of cell types
Created
2015-06-04
3,868 commits to master branch, last one a day ago
PANDORA - Predictive Analytics aNd Data Oriented Research Applications :computer:
Created
2018-07-03
1,361 commits to master branch, last one 2 months ago
Identification of differential RNA modifications from nanopore direct RNA sequencing
Created
2020-01-06
367 commits to master branch, last one 7 months ago
Revolutionizing DNA analysis and making it accessible to all through innovative AI-powered analysis and interpretive tools.
Created
2022-07-31
1,346 commits to main branch, last one 2 days ago
Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
Created
2020-04-15
1,322 commits to master branch, last one 10 days ago
Analyze your RNA sequencing data without writing a single line of code
Created
2019-06-20
3,227 commits to master branch, last one 2 days ago
Multiome GRN inference.
Created
2021-06-08
354 commits to main branch, last one 2 months ago
Hierarchical, iterative clustering for analysis of transcriptomics data in R
Created
2018-01-15
406 commits to master branch, last one 28 days ago
HMM-integrated Bayesian approach for detecting CNV and LOH events from single-cell RNA-seq data
Created
2017-02-24
106 commits to master branch, last one 2 years ago
Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
Created
2019-02-28
286 commits to master branch, last one 2 months ago
Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network
Created
2020-04-18
102 commits to master branch, last one about a year ago