pdxgx / neoepiscope
predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data
☆26Updated last year
Alternatives and similar repositories for neoepiscope:
Users that are interested in neoepiscope are comparing it to the libraries listed below
- ChIP-seq DC and QC Pipeline☆34Updated 4 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 3 years ago
- Using k-mers to call HLA alleles in RNA sequencing data☆22Updated 6 years ago
- Detecting somatic mutations and predicting tumor-specific neo-antigens☆28Updated 3 years ago
- Assembly of RNA reads to determine the effect of a cancer mutation on protein sequence☆25Updated 6 months ago
- Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.☆28Updated 4 years ago
- Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.☆35Updated 9 months ago
- Opossum is a tool to pre-process RNA-seq reads prior to variant calling.☆28Updated 6 years ago
- ☆19Updated 7 years ago
- Keep Me Around: Intron Retention Detection☆29Updated 6 years ago
- Pipeline for identifying viral integration and fusion mRNA reads from NGS data. Manuscript is currently in preparation.☆27Updated 3 years ago
- Model-based subclonal deconvolution from bulk sequencing.☆33Updated 3 months ago
- QBRC Neoantigen calling pipeline with CSiN calculation embedded☆24Updated 3 years ago
- Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…☆37Updated 11 months ago
- Sigflow: Streamline Analysis Workflows for Mutational Signatures, https://github.com/ShixiangWang/sigflow/pkgs/container/sigflow☆27Updated 6 months ago
- ☆38Updated 7 months ago
- ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.☆28Updated 5 years ago
- Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data☆34Updated 4 months ago
- Explore the cancer relevance of your gene list☆51Updated last month
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆30Updated last year
- DriverPower☆26Updated 2 months ago
- Repository for the Anczukow-Lab splicing pipeline☆15Updated 3 weeks ago
- Differential ATAC-seq toolkit☆27Updated last year
- alternative splicing analysis pipeline☆18Updated 4 years ago
- NeoFuse is a user-friendly pipeline for the prediction of fusion neoantigens from tumor RNA-seq data.☆19Updated 2 years ago
- Workflow for Sequenza, cellularity and ploidy☆18Updated 2 weeks ago
- simplified cellranger for long-read data☆18Updated last week
- R package to analyze aberrant splicing junctions in tumor samples to identify neoepitopes☆14Updated last month
- ☆47Updated 2 years ago
- An Integrated Analysis Pipeline for Unbiased ChIP seq Analysis☆21Updated 5 months ago