Alternatives and similar repositories for jcast

Users that are interested in jcast are comparing it to the libraries listed below

• dakwok / SSNIP
  The Spatial Splicing-derived Neoantigen Identifier Pipeline (SSNIP) allows for the precise characterization of neoantigens derived from c…
  ☆20Updated 8 months ago
• lcalviell / ORFquant
  An R package for Splice-aware quantification of translation using Ribo-seq data
  ☆19Updated 2 years ago
• JSB-UCLA / Clipper
  A p-value-free method for controlling false discovery rates in high-throughput biological data with two conditions
  ☆40Updated 3 years ago
• djhn75 / RNAEditor
  ☆15Updated 3 years ago
• eudoraleer / scasa
  SCASA: Single cell transcript quantification tool
  ☆22Updated 2 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆28Updated 3 years ago
• huyustats / SCATS
  A statistical tool to detect differential alternative splicing events using single-cell RNA-seq
  ☆22Updated 2 years ago
• TheJacksonLaboratory / BRCA-LRseq-pipeline
  Pipeline to analyze long-read mRNA isoforms and ORF products sequenced in breast cancer using PacBio Single-Molecule technology.
  ☆16Updated 3 years ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆32Updated 3 years ago
• comprna / ORQAS
  ORF Quantification pipeline for Alternative Splicing
  ☆16Updated 4 years ago
• nuno-agostinho / psichomics
  Interactive R package to quantify, analyse and visualise alternative splicing
  ☆37Updated 2 weeks ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• caravagnalab / mobster
  Model-based tumour subclonal deconvolution using population genetics
  ☆33Updated 2 weeks ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• zhejilab / RibORF
  Identifying genome-wide translated open reading frames using ribosome profiling
  ☆24Updated 2 years ago
• ashleymaeconard / TIMEOR
  TIMEOR: Trajectory Inference and Mechanism Exploration with Omics Data in R
  ☆17Updated 3 years ago
• tushiqi / MAnorm2
  MAnorm2 for Normalizing and Comparing ChIP-seq Samples
  ☆32Updated 3 years ago
• mdozmorov / RNA-seq_notes
  A continually expanding collection of RNA-seq tools
  ☆53Updated 2 months ago
• icbi-lab / NeoFuse
  NeoFuse is a user-friendly pipeline for the prediction of fusion neoantigens from tumor RNA-seq data.
  ☆19Updated 3 years ago
• mehdiborji / nanoranger
  simplified cellranger for long-read data
  ☆19Updated 3 months ago
• getzlab / MutSig2CV
  MutSig2CV from Lawrence et al. 2014
  ☆33Updated 5 years ago
• sigven / oncoEnrichR
  Explore the cancer relevance of your gene list
  ☆52Updated this week
• fmicompbio / monaLisa
  binned motif enrichment analysis and visualisation
  ☆43Updated last month
• JSB-UCLA / scReadSim
  A single cell sequencing read simulator.
  ☆33Updated last year
• TranslationalBioinformaticsUnit / GeneSetCluster
  a tool for summarizing and integrating gene-set analysis results
  ☆16Updated last year
• williamritchie / IRFinder
  Detecting intron retention from RNA-Seq experiments
  ☆55Updated last year
• frattalab / splicing
  Snakemake pipeline for running MAJIQ
  ☆23Updated 2 years ago
• gxiaolab / mountainClimber
  ☆20Updated 6 years ago
• TRON-Bioinformatics / EasyFuse
  EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.
  ☆62Updated 2 months ago
• ConesaLab / acorde
  Isoform co-usage networks from single-cell RNA-seq data
  ☆16Updated last year