chrisamiller / readDepth
R package for inferring copy number from read depth
☆32Updated 2 years ago
Alternatives and similar repositories for readDepth:
Users that are interested in readDepth are comparing it to the libraries listed below
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆34Updated last year
- ☆78Updated 10 years ago
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆37Updated 3 years ago
- QDNAseq package for Bioconductor☆49Updated 5 months ago
- Tools for processing and analyzing structural variants.☆32Updated 9 years ago
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆31Updated 8 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆37Updated 2 years ago
- Snakemake based pipeline for RNA-Seq analysis☆31Updated 5 years ago
- ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…☆20Updated 2 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 years ago
- Documenting usage and experience with bioinformatic tools☆40Updated 9 years ago
- ☆51Updated 5 years ago
- GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools☆48Updated 4 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 6 years ago
- SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3☆38Updated 4 years ago
- Genomic Association Tester☆30Updated last year
- Pipeline for annotating genomes using long read transcriptomics data with pinfish☆28Updated 4 years ago
- Explore, compare, and evaluate Bioconductor packages related to genomic copy number analysis☆21Updated last year
- Pipeline for structural variation detection in cohorts☆49Updated 3 years ago
- ☆39Updated 8 months ago
- Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.☆25Updated 5 years ago
- CN-Learn☆29Updated 4 years ago
- ☆45Updated 5 years ago
- A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.☆33Updated 3 years ago
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 6 years ago
- A software for calculating telomere length☆67Updated 6 years ago
- tools to find circRNAs in RNA-seq data☆40Updated 7 years ago
- Filtering and profiling of next-generational sequencing data using region-specific rules☆74Updated last year
- ☆23Updated 5 months ago