BoutrosLaboratory / bamql
Query language for filtering SAM/BAM reads
☆31Updated 3 months ago
Alternatives and similar repositories for bamql:
Users that are interested in bamql are comparing it to the libraries listed below
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 2 years ago
- Preprocessing tools for unique molecular index (UMI) sequencing reads☆31Updated last year
- filtering trio-based genetic variants in VCFs for clinical review☆21Updated 4 years ago
- Keep Me Around: Intron Retention Detection☆29Updated 5 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
- MetaSV: An accurate and integrative structural-variant caller for next generation sequencing☆55Updated 7 years ago
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 6 years ago
- an empirical Bayesian framework for mutation detection from cancer genome sequencing data☆31Updated 8 years ago
- R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework☆39Updated 4 months ago
- Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer☆45Updated this week
- 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
- (WIP) best-practices workflow for rare disease☆59Updated 6 months ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 years ago
- Calib clusters barcode tagged paired-end reads based on their barcode and sequence similarity.☆38Updated last year
- Pipeline for identifying viral integration and fusion mRNA reads from NGS data. Manuscript is currently in preparation.☆27Updated 3 years ago
- FLT3 ITD detection (ITDseek) and simulation (ITDsim)☆14Updated 5 years ago
- ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…☆20Updated 2 years ago
- For biological deep sequencing data. Decompose a UCSC knownGenes/Ensembl GTF file into transcript regions (i.e. exons, introns, UTRs and…☆34Updated last year
- Software to assemble contigs/scaffolds into chromosomes using Hi-C data☆27Updated 3 months ago
- Full-spectrum copy number variation detection by high-throughput DNA sequencing☆37Updated 3 years ago
- Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets☆37Updated 4 years ago
- Assembly Based ReAligner☆72Updated 6 years ago
- Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model☆27Updated last year
- Haplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads☆67Updated 10 months ago
- ☆21Updated this week
- The integrated pipeline for Indel detection☆17Updated 6 years ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- Version II of Mandalorion☆32Updated 5 years ago
- Software for performing UDiTaS sequencing analysis.☆13Updated 2 years ago
- for visual evaluation of read support for structural variation☆51Updated 7 months ago