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
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 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
- ☆51Updated 5 years ago
- Tools for processing and analyzing structural variants.☆33Updated 9 years ago
- A software for calculating telomere length☆68Updated 6 years ago
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆37Updated 3 years ago
- Documenting usage and experience with bioinformatic tools☆41Updated 9 years ago
- QDNAseq package for Bioconductor☆49Updated 7 months ago
- CNV screening and annotation tool☆24Updated 8 years ago
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆32Updated 8 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
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.☆27Updated 5 years ago
- R package designed to simplify structural variant analysis☆72Updated 3 years ago
- ☆52Updated 2 years ago
- heuristics to merge structural variant calls in VCF format.☆36Updated 8 years ago
- SMN1 copy-number and sequence variant analysis from next generation sequencing data☆22Updated last year
- Pipeline for structural variation detection in cohorts☆49Updated 3 years ago
- An awk-like VCF parser☆56Updated last year
- ClassifyCNV: a tool for clinical annotation of copy-number variants☆61Updated last year
- ☆39Updated 10 months ago
- ☆78Updated 11 years ago
- A snakemake pipeline for SV analysis from nanopore genome sequencing☆51Updated 5 years ago
- GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools☆48Updated 4 years ago
- Microsatellite instability (MSI) detection for cfDNA samples.☆19Updated 4 years ago
- ☆46Updated 5 years ago
- ☆23Updated 7 months ago
- ENCODE long read RNA-seq pipeline☆45Updated 2 years ago
- Genomic Association Tester☆30Updated last year