cauyrd / ScanIndel
The integrated pipeline for Indel detection
☆17Updated 6 years ago
Alternatives and similar repositories for ScanIndel:
Users that are interested in ScanIndel are comparing it to the libraries listed below
- program for haplotype phasing from sequence reads and related tools☆25Updated 6 years ago
- heuristics to merge structural variant calls in VCF format.☆36Updated 8 years ago
- Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata☆56Updated 3 years 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
- A method to identify structural variation from sequencing data in target regions☆31Updated 4 years ago
- Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model☆27Updated last year
- Remove primer sequence from BAM alignments by soft-clipping☆31Updated 5 years ago
- Pipeline for structural variation detection in cohorts☆49Updated 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 2 years ago
- Python package and routines for merging VCF files☆29Updated 3 years ago
- UCSC Nanopore☆43Updated 5 years ago
- Long read alignment analysis. Generate a reports on sequence alignments for mappability vs read sizes, error patterns, annotations and r…☆47Updated 6 years ago
- MetaSV: An accurate and integrative structural-variant caller for next generation sequencing☆55Updated 7 years ago
- What is true, thank you, ernestly. A large variant benchmarking tool analogous to hap.py for small variants.☆32Updated last year
- Structural Variant Prediction Viewer☆34Updated 7 years ago
- Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses☆31Updated 3 years ago
- Python scripts for matching output of Pacific Biosciences IsoSeq RNA-seq pipeline to an annotation file.☆23Updated 9 years ago
- Genotype and phase short tandem repeats using Illumina whole-genome sequencing data☆30Updated 3 years ago
- Pipeline for structural variant image curation and analysis.☆48Updated 3 years ago
- Structural variant caller☆54Updated 3 years ago
- Graphite - Graph-based variant adjudication☆28Updated 4 years ago
- FermiKit small variant calls for public SGDP samples☆17Updated 8 years ago
- Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA☆27Updated 9 months ago
- Linked-Read Alignment Tool☆27Updated 5 years ago
- Methods to integrate data from multiple genome sequencing datasets and form consensus variant calls☆43Updated 3 years ago
- ☆39Updated 6 months ago
- filtering trio-based genetic variants in VCFs for clinical review☆21Updated 4 years ago
- Prioritize structural variants based on CADD scores☆29Updated 4 years ago
- Tool to annotate outfiles from ExpansionHunter and TRGT with the pathologic implications of the repeat☆32Updated 2 weeks ago
- an empirical Bayesian framework for mutation detection from cancer genome sequencing data☆31Updated 8 years ago