alternative-splicing

There are 68 repositories under alternative-splicing topic.

  • timbitz/Whippet.jl

    Lightweight and Fast; RNA-seq quantification at the event-level

    Language:Julia105129421

  • nsalomonis/altanalyze

    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.

    Language:Python98165330

  • VCCRI/Sierra

    Discover differential transcript usage from polyA-captured single cell RNA-seq data

    Language:R4997117

  • nf-core/rnasplice

    rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis

    Language:Nextflow421464623

  • huangyh09/brie

    BRIE: Bayesian Regression for Isoform Estimate in Single Cells

    Language:Python41105015

  • nuno-agostinho/psichomics

    Interactive R package to quantify, analyse and visualise alternative splicing

    Language:R35537911

  • Xinglab/PEGASAS

    Pathway Enrichment-Guided Activity Study of Alternative Splicing (PEGASAS)

    Language:Python184611

  • hclimente/smartas

    📓Notebook of Climente-González et al. (2017), The Functional Impact of Alternative Splicing in Cancer.

    Language:Jupyter Notebook14405

  • Imamachi-n/NGS-Tutorial

    NGS Tutorial

    Language:HTML14416

  • louadi/NEASE

    A network-based approach for exon set enrichment

    Language:Python14182

  • Caleydo/vials

    Vials is a Caleydo Web application for visualizing alternative splicing based on mRNAseq data.

    Language:TypeScript1310974

  • comprna/ISOTOPE

    ISOform-guided prediction of epiTOPEs in cancer

    Language:Python13556
  • eFP-Seq_Browser

    BioAnalyticResource/eFP-Seq_Browser

    An RNA-Seq data exploration tool that shows read map coverage of a gene of interest along with a coloured "electronic fluorescent pictographic" (eFP) based on its RPKM expression level.

    Language:HTML12317

  • yollct/spycone

    Spicing-aware time-course network enricher - exploratory analysis for transcriptomics and/or proteomics time series data

    Language:Python11260

  • hclimente/spada

    ⚔️Find splicing-led, functional changes of the proteome.

    Language:Python10141

  • PhyloSofS-Team/thoraxe

    Use Thor's Axe to cut exons into their evolutionary building blocks :zap:

    Language:Python10343

  • dieterich-lab/Baltica

    Baltica: integrated differential junction usage

    Language:R84153

  • huang-sh/astk

    Alternative Splicing ToolKit

    Language:Python8100

  • huangyh09/brie-tutorials

    Tutorials for using BRIE

    Language:Jupyter Notebook7230

  • shehio/Computational-Biology

    Language:Jupyter Notebook6201

  • areyesq89/HumanTissuesDEU

    Reproducibility of "Alternative start and termination sites of transcription drive most transcript isoform differences across human tissues."

    Language:HTML4223

  • PhyloSofS-Team/PhyloSofS

    A tool to model the evolution and structural impact of alternative splicing

    Language:Python4420

  • AngryMaciek/snakemake_suppa2

    A snakemake workflow to perform Alternative Splicing analysis from RNA-Seq with SUPPA2.

    Language:Python3100

  • breecoffey/RNA-Seq-Splicing-Analysis-Pipeline

    Computational biology pipeline that quantifies RNA splicing and performs sQTL mapping

    Language:Python3203

  • DISC-IISR/RNAseqAnalysis

    The package RNAseqAnalysis does the complete analysis of RNA seq data starting from raw reads. It provides the user with differnt functions like generation of qc report, filtering, assembly and GO-term annotation, differential expression analysis and heatmap generation, and Alternative splicing-site prediction

    Language:R3101
  • IsoAligner

    JacobHanimann/IsoAligner

    IsoAligner: dynamic mapping of amino acid positions across protein isoforms

    Language:Python3102

  • kdis-lab/SupervisedMethodology

    A supervised methodology for analyzing dysregulation in splicing machinery: an application in cancer diagnosis.

    Language:Python3401

  • nuno-agostinho/rmats-docker

    Docker to run rMATS for splicing quantification and analysis

    Language:Python3214

  • UdeS-CoBIUS/SimSpliceEvol

    SimSpliceEvol: Alternative splicing-aware simulation of biological sequence evolution

    Language:Python3102

  • yuhuihui2011/VaSP

    Quantification and Visualization of Variations of Splicing in Population

    Language:R3100

  • antoineszatkownik/ASRUs_generator

    Language:Python2110
  • SMG5-SMG7

    boehmv/SMG5-SMG7

    Code and scripts for the RNA-seq analysis of project: SMG5-SMG7 authorize nonsense-mediated mRNA decay by enabling SMG6 endonucleolytic activity

    Language:R2300

  • boehmv/UPF3

    Code and scripts for the RNA-seq analysis of project: Deciphering the cellular roles and dissecting functional regions of UPF3A and UPF3B in human NMD

    Language:R2100

  • fchen365/surf

    The statistical utility for RBP functions (SURF)

    Language:R2013

  • KarakulakTulay/CanIsoNet_Web

    Functional impact of cancer-specific isoform switching events: Visualization via STRING interaction network

    Language:HTML2202

  • rubenchazarra/Transcript-Protein-Domain-Mapper

    Method for retrieving and visualising the protein domains of any protein coding isoform and of different genomes. Enables joint visualisations representing alternative splicing events.

    Language:R2100