broadinstitute / ichorCNA
Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
☆177Updated 11 months ago
Alternatives and similar repositories for ichorCNA:
Users that are interested in ichorCNA are comparing it to the libraries listed below
- ASCAT R package☆175Updated 2 months ago
- Script to automatically create and run IGV snapshot batchscripts☆140Updated 2 years ago
- SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the n…☆156Updated last month
- A structural variation pipeline for short-read sequencing☆182Updated this week
- ENCODE Uniform processing pipeline for ChIP-seq☆123Updated 4 years ago
- A short tutorial on how to use RSEM☆136Updated 4 years ago
- A package for including transposable elements in differential enrichment analysis of sequencing datasets.☆243Updated last month
- HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.☆239Updated 3 months ago
- Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae …☆212Updated 9 months ago
- ☆112Updated last year
- ☆147Updated 2 years ago
- Check strandedness of RNA-Seq fastq files☆119Updated 2 years ago
- Detecting sites of genomic enrichment☆190Updated last year
- tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies☆142Updated last month
- AQUAS TF and histone ChIP-seq pipeline☆107Updated 2 years ago
- SEACR: Sparse Enrichment Analysis for CUT&RUN☆107Updated 2 years ago
- This Snakemake pipeline implements the GATK best-practices workflow☆248Updated last year
- tools for adding mutations to existing .bam files, used for testing mutation callers☆238Updated 4 months ago
- dN/dS methods to quantify selection in cancer and somatic evolution☆220Updated this week
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆156Updated last year
- ☆127Updated 6 years ago
- ☆116Updated last year
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆208Updated this week
- ☆141Updated last month
- RNA-Seq analysis workflow☆104Updated 3 years ago
- AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and …☆142Updated 8 months ago
- Copy number calling and variant classification using targeted short read sequencing☆132Updated last month
- Fast and accurate in silico inference of HLA genotypes from RNA-seq☆124Updated 6 months ago
- ATAC-seq peak-calling and QC analysis pipeline☆196Updated this week
- VarDict☆194Updated last year