xiongxu / HighPerformanceNGS
hight performance & useful tools for working with fastq and bam files
☆30Updated 5 years ago
Related projects ⓘ
Alternatives and complementary repositories for HighPerformanceNGS
- Extremely fast BAM depth calculation for WGS, exome, or targeted sequencing☆12Updated 5 years ago
- ☆51Updated 5 years ago
- Genome scaffolding based on HiC data in heterozygous and high ploidy genomes☆59Updated 3 years ago
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Updated 2 years ago
- R package designed to simplify structural variant analysis☆70Updated 2 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
- A snakemake pipeline for SV analysis from nanopore genome sequencing☆51Updated 4 years ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 years ago
- Tools for the analysis of structural variation in genomes☆77Updated 7 months ago
- ENCODE long read RNA-seq pipeline☆44Updated last year
- A method for variant graph genotyping based on exact alignment of k-mers☆87Updated 5 years ago
- Comprehensive benchmark of structural variant callers☆44Updated 3 years ago
- ☆15Updated 11 months ago
- My collection of light bioinformatics analysis pipelines for specific tasks☆71Updated 6 months ago
- Structural Variant Index☆70Updated this week
- Coding Genome Reconstruction using Iso-Seq data☆60Updated 3 years ago
- A simple tool to calculate reads number and total base count in FASTQ file☆20Updated 5 years ago
- Simple code snippets and data for the One Flowcell - One Assembly study☆36Updated 6 years ago
- WISECONDOR (WIthin-SamplE COpy Number aberration DetectOR): Detect fetal trisomies and smaller CNV's in a maternal plasma sample using wh…☆44Updated 7 months ago
- Microsatellite instability (MSI) detection for cfDNA samples.☆18Updated 3 years ago
- Somatic structural variant caller for long-read data☆50Updated this week
- 10x Genomics Reads Simulator☆45Updated 10 months ago
- MIP based joint inference of copy number and rearrangement state in cancer whole genome sequence data.☆56Updated 5 months ago
- Converting and demultiplexing of PacBio BAM files into gzipped fasta and fastq files.☆37Updated last year
- Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data☆66Updated 2 months ago
- Lightweight single-html-file-based Genome Segments playground for Visualize genome features cluster(gene arrow map or other features), ad…☆31Updated 4 years ago
- A standalone end-to-end data analysis pipeline for Duplex Sequencing☆21Updated last year
- heuristics to merge structural variant calls in VCF format.☆35Updated 8 years ago
- Lima - Demultiplex Barcoded PacBio Samples☆65Updated 3 weeks ago
- Updated and optimized fork of BSMAP☆21Updated 3 years ago