aryeelab / umi
Preprocessing tools for unique molecular index (UMI) sequencing reads
☆31Updated last year
Alternatives and similar repositories for umi:
Users that are interested in umi are comparing it to the libraries listed below
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆32Updated 8 years ago
- Splice junction analysis and filtering from BAM files☆39Updated 2 years ago
- Remove primer sequence from BAM alignments by soft-clipping☆31Updated 5 years ago
- Python package and routines for merging VCF files☆29Updated 3 years ago
- ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…☆21Updated 2 years ago
- Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses☆31Updated 3 years ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 years ago
- heuristics to merge structural variant calls in VCF format.☆36Updated 8 years ago
- An awk-like VCF parser☆56Updated last year
- smCounter: a versatile UMI-aware variant caller to detect both somatic and germline SNVs and indels. Published in article "Detecting very…☆20Updated 5 years ago
- Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata☆56Updated 3 years ago
- A method to identify structural variation from sequencing data in target regions☆31Updated 4 years ago
- Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)☆41Updated 10 months ago
- simple library for dealing with SAM cigar strings☆40Updated 4 years ago
- filtering trio-based genetic variants in VCFs for clinical review☆21Updated 4 years ago
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 6 years ago
- Maximum likelihood demultiplexing☆46Updated last month
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆48Updated 5 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 6 years ago
- Adapters for trimming☆30Updated 6 years ago
- CLAMMS is a scalable tool for detecting common and rare copy number variants from whole-exome sequencing data.☆29Updated 4 years ago
- R package for inferring copy number from read depth☆32Updated 2 years ago
- ☆46Updated 5 years ago
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆37Updated 3 years ago
- Structural Variant Prediction Viewer☆34Updated 7 years ago
- MetaSV: An accurate and integrative structural-variant caller for next generation sequencing☆55Updated 7 years ago
- Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer☆45Updated this week
- Tools to handle reads sequenced with unique molecular identifiers (UMIs).☆30Updated 7 years ago
- A tool to benchmark mappers and different parameters within minutes☆43Updated 5 years ago
- Software for performing UDiTaS sequencing analysis.☆13Updated 2 years ago