riverlee / pileup2base
Parse samtools pileup file to get how many bases and what kind of bases are called
☆14Updated 6 months ago
Related projects ⓘ
Alternatives and complementary repositories for pileup2base
- MAGERI - Assemble, align and call variants for targeted genome re-sequencing with unique molecular identifiers☆21Updated 7 years ago
- MSKCC Reis-Filho Lab pipeline thingy☆16Updated 3 months ago
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆31Updated 8 years ago
- a parallel R package for detecting copy-number alterations from short sequencing reads☆22Updated 3 years ago
- novoBreak: local assembly for breakpoint detection in cancer genomes☆26Updated 6 years ago
- Automated human exome/genome variants detection from FASTQ files☆22Updated 3 years ago
- A set of tools to annotate VCF files with expression and readcount data☆25Updated 2 months ago
- Codes and Data for FFPEsig manuscript☆15Updated 10 months ago
- DRAGEN Tumor/Normal workflow post-processing☆22Updated last year
- VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…☆22Updated 4 years ago
- Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses☆31Updated 2 years ago
- 📊Evaluating, filtering, comparing, and visualising VCF☆27Updated last year
- Flexible Bayesian inference of mutational signatures☆33Updated last year
- DriverPower☆26Updated 5 months ago
- Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.☆32Updated 2 years ago
- ☆22Updated 3 months ago
- Ximmer is a system for CNV calling on exome and targeted genomic sequencing☆19Updated 3 months ago
- Filter and prioritize fusion calls☆20Updated last month
- a Shiny/R application to view and annotate copy number variations☆28Updated last year
- Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes☆27Updated 4 months ago
- Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.☆24Updated 9 years ago
- Utility functions for FACETS☆34Updated 8 months ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆41Updated 2 years ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 years ago
- Adapters for trimming☆30Updated 5 years ago
- Allele-specific copy number estimation with whole genome sequencing☆23Updated last year
- Python package and routines for merging VCF files☆29Updated 3 years ago
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆37Updated 3 years ago
- A tool for sample swap identification in high throughput sequencing studies☆10Updated 2 years ago
- Structural Variant Prediction Viewer☆31Updated 7 years ago