ptrebert / project-diploid-assemblyLinks
Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
☆16Updated last year
Alternatives and similar repositories for project-diploid-assembly
Users that are interested in project-diploid-assembly are comparing it to the libraries listed below
Sorting:
- A long-read analysis toolbox for cancer and population genomics☆23Updated 4 months ago
- VCF files of SVs using long-read sequencing (LRS).☆22Updated 3 years ago
- Kmer based genotyper for short reads.☆23Updated 4 years ago
- Population-wide Deletion Calling☆35Updated 7 months ago
- Exact Tandem Repeat Finder (not a TRF replacement)☆50Updated 6 years ago
- Lift-over alignments from variant-aware references☆34Updated 2 years ago
- ☆14Updated 2 years ago
- ☆16Updated 10 months ago
- Fast in-silico normalization algorithm for NGS data☆23Updated 4 years ago
- Structural variant (SV) analysis tools☆39Updated last year
- StrVCTVRE, a structural variant classifier for exonic deletions and duplications☆19Updated last year
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆32Updated 2 weeks ago
- Split a BAM file by haplotype support☆16Updated 7 years ago
- A module for improving the insertion sequences of structural variant calls☆32Updated 4 years ago
- Detect and phase minor SNVs from long-read sequencing data☆14Updated 3 years ago
- Hidden Markov Model based Copy number caller☆20Updated last year
- Method to optimally select samples for validation and resequencing☆29Updated 4 years ago
- ☆16Updated 3 years ago
- Comprehensive alignment, whole-genome coverage, and capture coverage statistics.☆19Updated 10 months ago
- Phase reads, assemble haplotypes and detect SVs☆19Updated 5 years ago
- A simple tool to fix PacBio fasta/q that was not properly split into subreads☆16Updated 4 years ago
- Structural variant caller for low-depth long-read sequencing data☆45Updated last month
- ☆35Updated 5 years ago
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆17Updated 5 years ago
- Methylmap is a tool for visualization of modified nucleotide frequencies for large cohort sizes.☆21Updated 8 months ago
- ☆28Updated 7 months ago
- A python wrapper around SURVIVOR☆20Updated last year
- SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel☆37Updated 6 months ago
- Functions to compare a SV call sets against a truth set.☆30Updated 4 months ago
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆27Updated last year