altanalyze
Genomics analyzer
An automated cross-platform workflow for RNA-Seq gene and splicing analysis
AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-use precompiled graphical user-interface versions available from our website.
100 stars
16 watching
30 forks
Language: Python
last commit: over 3 years ago
Linked from 1 awesome list
alternative-splicingbam-filesbioinformatics-pipelinecell-cyclecell-type-classificationclusteringcommand-line-toolfastq-anaysisgraphical-interfacelouvain-community-detectionmarker-gene-analysisnetwork-analysispagerankpathway-analysispythonrna-seq-datascrna-seq-datasingle-cell-splicingsplicing-quantificationsplicing-visualization
seandavi/awesome-single-cellRelated projects:
| Repository | Description | Stars |
|---|---|---|
 yeolab/outrigger | Automates detection and quantification of alternative splicing events from RNA seq data using graph databases. | 65 |
 evanfloden/vast-tools-nf | A Nextflow implementation of VAST-TOOLS for profiling alternative splicing events in RNA-Seq data | 5 |
 snakemake-workflows/single-cell-rna-seq | A workflow generator for single-cell RNA-seq data analysis | 100 |
 statomics/zinbwavezinger | A software framework for integrating zingeR with ZINB-WaVE weights for RNA-seq data analysis | 23 |
 lingfeiwang/normalisr | A software framework for analyzing single-cell RNA sequencing data | 18 |
 guigolab/ipsa-nf | An integrative pipeline for analyzing splicing events from RNA sequencing data | 9 |
 asncd/mimosca | A tool for designing and analyzing pooled single cell RNA-seq perturbation experiments to understand biological dynamics | 87 |
 scverse/scanpy | A Python toolkit for analyzing large-scale single-cell gene expression data | 1,954 |
 naikai/sake | A tool for analyzing Single-cell RNA-Seq data to identify patterns and clusters in gene expression. | 27 |
 imb-computational-genomics-lab/ascend | Tools and methods for analyzing single-cell RNA sequencing data, including expression normalization and differential gene expression analysis. | 22 |
 ficusss/pygmnormalize | A package for normalizing gene expression matrices using various techniques. | 9 |
 lanagarmire/ssrge | A Python package that performs sparse linear model fitting on gene expression data and SNV matrices. | 33 |
 abreschi/shortrna-nf | A pipeline tool for processing short RNA-seq data from start to finish. | 3 |
 catavallejos/basics | An integrated Bayesian hierarchical model to analyze single-cell sequencing data | 84 |
 nationalgenomicsinfrastructure/icing | An approach to analyzing OxfordNanopore reads for HLA typing using Python | 13 |