cauyrd / ScanIndel
The integrated pipeline for Indel detection
☆17Updated 6 years ago
Related projects: ⓘ
- program for haplotype phasing from sequence reads and related tools☆25Updated 5 years ago
- Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata☆56Updated 2 years ago
- Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model☆27Updated 8 months ago
- 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
- Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses☆31Updated 2 years ago
- heuristics to merge structural variant calls in VCF format.☆35Updated 7 years ago
- Python package and routines for merging VCF files☆29Updated 3 years ago
- Preprocessing tools for unique molecular index (UMI) sequencing reads☆31Updated last year
- What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.☆28Updated last year
- Genotype and phase short tandem repeats using Illumina whole-genome sequencing data☆27Updated 3 years ago
- filtering trio-based genetic variants in VCFs for clinical review☆20Updated 4 years ago
- A Framework to call Structural Variants from NGS based datasets☆21Updated 6 years ago
- ☆38Updated last week
- My experimental tools on top of htslib. NOT OFFICIAL!!!☆52Updated last year
- Remove primer sequence from BAM alignments by soft-clipping☆31Updated 4 years ago
- Linked-Read Alignment Tool☆28Updated 5 years ago
- Pipeline for structural variation detection in cohorts☆45Updated 3 years ago
- Pipeline for structural variant image curation and analysis.☆48Updated 2 years ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 3 years ago
- FermiKit small variant calls for public SGDP samples☆17Updated 7 years ago
- Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.☆24Updated 8 years ago
- Adapter trimming and virtual library creation for Illumina Nextera Mate Pair libraries.☆54Updated 6 years ago
- ☆25Updated this week
- Indel caller for DNA-seq or RNA-seq☆14Updated last year
- ☆29Updated 2 years ago
- Custom tools to 'facilitate' BioNano Genomics data analysis☆33Updated 5 years ago
- A method to identify structural variation from sequencing data in target regions☆31Updated 3 years ago
- Prioritize structural variants based on CADD scores☆28Updated 4 years ago
- Graphite - Graph-based variant adjudication☆28Updated 3 years ago
- RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…☆65Updated last year