ENCODE-DCC / dnase_pipeline
ENCODE DNase-seq pipeline essentials for running on dnanexus.
☆12Updated 5 years ago
Related projects ⓘ
Alternatives and complementary repositories for dnase_pipeline
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- A toolset for profiling alternative splicing events in RNA-Seq data.☆78Updated 3 months ago
- ☆65Updated last year
- IDR☆30Updated last year
- A toolkit for QC and visualization of ATAC-seq results.☆66Updated 3 weeks ago
- nucleosome calling using ATAC-seq☆106Updated 3 years ago
- Identifying recurrent mutations in cancer☆37Updated 3 years ago
- Public repository containing research code for the TCGA PanCanAtlas Splicing project☆41Updated 3 years ago
- identifying mutational significance in cancer genomes☆60Updated last year
- DCC uses output from the STAR read mapper to systematically detect back-splice junctions in next-generation sequencing data. DCC applies …☆36Updated 2 years ago
- ☆37Updated 4 years ago
- RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.☆26Updated 2 years ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆48Updated 5 years ago
- A tool for bigWig files.☆118Updated 6 years ago
- Scripts to import your FeatureCounts output into DEXSeq☆30Updated 6 years ago
- Battenberg algorithm and associated implementation script☆51Updated 4 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆28Updated 6 years ago
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 6 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆39Updated 3 years ago
- gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (…☆32Updated 2 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆69Updated 3 years ago
- Documenting usage and experience with bioinformatic tools☆40Updated 9 years ago
- A combined strategy to identify circular RNAs (circRNAs and ciRNAs) (Zhang et al., Complementary Sequence-Mediated Exon Circularization, …☆60Updated 5 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆36Updated 2 years ago
- CLIP-seq Analysis of Multi-mapped reads☆28Updated 3 years ago
- DCC/DAC methylation pipeline source☆55Updated 4 years ago
- ☆70Updated 6 months ago
- Robust Allele Specific Quantification and quality controL☆37Updated 2 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆94Updated 3 years ago