dkoboldt / varscan
Variant calling and somatic mutation/CNV detection for next-generation sequencing data
☆153Updated last year
Related projects ⓘ
Alternatives and complementary repositories for varscan
- VarDict☆187Updated 10 months ago
- This Snakemake pipeline implements the GATK best-practices workflow☆242Updated last year
- Script to automatically create and run IGV snapshot batchscripts☆137Updated last year
- A short tutorial on how to use RSEM☆133Updated 4 years ago
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆192Updated last week
- Workflows for germline short variant discovery with GATK4☆133Updated 3 years ago
- Finder of Somatic Fusion Genes in RNA-seq data☆141Updated last year
- Discovering known and novel miRNAs from small RNA sequencing data☆138Updated 2 months ago
- PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.☆251Updated 4 months ago
- Structural variation and indel detection by local assembly☆233Updated 5 months ago
- Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads☆106Updated last year
- ABRA2☆90Updated last year
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆125Updated 2 years ago
- a lightweight bam file depth statistical tool☆147Updated last month
- SV detection from paired end reads mapping☆114Updated 5 years ago
- A structural variation pipeline for short-read sequencing☆171Updated this week
- Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data☆151Updated 2 months ago
- Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)☆128Updated last year
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆204Updated 4 months ago
- WisecondorX — An evolved WISECONDOR☆94Updated last month
- Fast and accurate gene fusion detection from RNA-Seq data☆226Updated last week
- a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads☆209Updated 2 years ago
- RNA-Seq analysis workflow☆104Updated 3 years ago
- (Not Offical) BBMap short read aligner, and other bioinformatic tools.☆211Updated 3 years ago
- Read trimming tool for Illumina NGS data.☆127Updated 9 years ago
- ASCAT R package☆165Updated last week
- A package for including transposable elements in differential enrichment analysis of sequencing datasets.☆224Updated 2 weeks ago
- phasing and Allele Specific Expression from RNA-seq☆110Updated 3 months ago
- Tool for the Quality Control of Long-Read Defined Transcriptomes☆198Updated this week
- Nanopore demultiplexing, QC and alignment pipeline☆179Updated this week