ICGC-TCGA-PanCancer / Seqware-BWA-Workflow
This is the BWA workflow used in the PanCancer project used to allign all the BAM files.
☆11Updated last year
Related projects ⓘ
Alternatives and complementary repositories for Seqware-BWA-Workflow
- Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers☆15Updated 6 years ago
- RNA-Seq pipeline☆34Updated 9 years ago
- This repository contains the source code of the revised version of MutPanning. MutPanning is publicly available under the BSD3-Clause ope…☆12Updated 5 years ago
- A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.☆28Updated 3 months ago
- A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.☆25Updated 8 years ago
- Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.☆28Updated 3 years ago
- software for analysis of chromatin feature occupancy profiles from high-throughput sequencing data☆16Updated 4 years ago
- R package specialized in HLA typing clustering and visualization based on specific similarity metrics☆12Updated 5 years ago
- Expectation-Maximization algorithm for Allele-Specific Expression☆21Updated last year
- Example datasets for CNVkit (http://github.com/etal/cnvkit)☆19Updated 6 years ago
- The EnsembleVariantCallingPipeline takes files in FASTQ or BAM format and performs SNV and INDEL variant calling from 4 variant callers (…☆12Updated last year
- Allele-Specific Expression by Single-Cell RNA Sequencing☆28Updated 4 years ago
- NeoFuse is a user-friendly pipeline for the prediction of fusion neoantigens from tumor RNA-seq data.☆17Updated 2 years ago
- Modeling and correcting fragment sequence bias for RNA-seq☆24Updated 5 months ago
- The code for Daugherty, et al 2017 - Chromatin accessibility dynamics reveal novel functional enhancers in C. elegans☆11Updated 7 years ago
- The official repository for the deepSNV bioconductor packages. Branch master tracks the official Bioconductor development branch.☆14Updated 2 years ago
- R package for haplotype phasing using single-cell RNA-seq data☆13Updated 7 years ago
- ChIP-seq DC and QC Pipeline☆34Updated 3 years ago
- DriverPower☆26Updated 5 months ago
- Reconstructs complex variation using Bionano optical mapping data and breakpoint graph data☆16Updated last year
- Scripts and software supplement for "Gene-level differential analysis at transcript-level resolution" by Yi, Pimentel, Bray and Pachter☆19Updated 6 years ago
- Helpers for working with ChromHMM (http://compbio.mit.edu/ChromHMM/)☆16Updated 6 years 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
- Filter and prioritize fusion calls☆20Updated last month
- Introduction to single cell RNAseq data analysis and interpretation course work provided by Harvard Informatics Team.☆16Updated 6 years ago
- A toolkit for working with ATAC-seq data.☆24Updated 5 months ago
- a set of NGS pipelines☆24Updated 3 weeks ago
- DRAGEN Tumor/Normal workflow post-processing☆22Updated last year
- ☆23Updated 3 years ago
- ☆15Updated 7 years ago