hms-dbmi / spp
SPP - R package for analysis of ChIP-seq and other functional sequencing data
☆42Updated 3 years ago
Alternatives and similar repositories for spp:
Users that are interested in spp are comparing it to the libraries listed below
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- Tools to handle reads sequenced with unique molecular identifiers (UMIs).☆30Updated 7 years ago
- How to use CENTIPEDE to determine if a transcription factor is bound.☆26Updated 6 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 2 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆38Updated 3 years ago
- Genomic Association Tester☆30Updated last year
- Snakemake based pipeline for RNA-Seq analysis☆31Updated 5 years ago
- RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.☆27Updated 3 years ago
- gemBS is a bioinformatics pipeline designed for high throughput analysis of DNA methylation from Whole Genome Bisulfite Sequencing data (…☆33Updated 3 years ago
- Disambiguation algorithm for reads aligned to human and mouse genomes using Tophat or BWA mem☆30Updated 6 years ago
- ☆25Updated 9 months ago
- Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…☆26Updated 6 months ago
- Sashimi plots for RNA-seq data using detected transcripts☆27Updated 2 months ago
- Explore, compare, and evaluate Bioconductor packages related to genomic copy number analysis☆21Updated last year
- ChIP-seq DC and QC Pipeline☆34Updated 3 years ago
- Scripts to import your FeatureCounts output into DEXSeq☆33Updated 6 years ago
- This package computes informative enrichment and quality measures for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data. It can also be used to…☆58Updated 4 years ago
- DriverPower☆26Updated last month
- Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.☆32Updated 2 years ago
- BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.☆27Updated 5 years ago
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆35Updated last year
- Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.☆22Updated 6 years ago
- ☆33Updated 2 years ago
- Tutorials covering various topics in genomic data analysis.☆16Updated 6 years ago
- RNA-seq workflow: differential transcript usage☆20Updated last year
- 2017_2018 single cell RNA sequencing Workshop UCD_UCB_UCSF☆36Updated 6 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.☆34Updated 3 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆70Updated 9 months ago
- Tool for parsing outputs from fusion detection tools. Part of a nf-core/rnafusion pipeline. Checkout a live demo at https://matq007.githu…☆26Updated 3 months ago