CMU-SAFARI / AirLiftLinks
AirLift is a tool that updates mapped reads from one reference genome to another. Unlike existing tools, It accounts for regions not shared between the two reference genomes and enables remapping across all parts of the references. Described by Kim et al. (preliminary version at http://arxiv.org/abs/1912.08735)
☆27Updated last year
Alternatives and similar repositories for AirLift
Users that are interested in AirLift are comparing it to the libraries listed below
Sorting:
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Updated 3 years ago
- Genotyping of segregating mobile elements insertions☆19Updated 4 years ago
- Population-wide Deletion Calling☆35Updated 5 months ago
- A long-read analysis toolbox for cancer and population genomics☆23Updated 2 months ago
- Structural variant (SV) analysis tools☆36Updated last year
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆17Updated 5 years ago
- ☆16Updated 8 months ago
- A python wrapper around SURVIVOR☆20Updated last year
- Immuological gene typing and annotation for genome assembly☆38Updated 6 months ago
- Exact Tandem Repeat Finder (not a TRF replacement)☆49Updated 5 years ago
- URMAP ultra-fast read mapper☆38Updated 5 years ago
- 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
- ☆33Updated 2 years ago
- A tool to extract LOH blocks from VCF, BAM and FASTA data☆24Updated last year
- Reducing reference bias using multiple population reference genomes☆33Updated last year
- Profile HMM-based hybrid error correction algorithm for long reads☆21Updated 7 years ago
- Tumour-only somatic mutation calling using long reads☆27Updated 10 months ago
- Lift-over alignments from variant-aware references☆34Updated 2 years ago
- Fast in-silico normalization algorithm for NGS data☆23Updated 3 years ago
- MethPhaser: methylation-based haplotype phasing of human genomes☆49Updated 6 months ago
- TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain☆21Updated last year
- Alignment-free genotyper for SNPs and short indels, implemented in Python.☆50Updated 6 months ago
- PopSTR - A Population based microsatellite genotyper☆33Updated last year
- Functions to compare a SV call sets against a truth set.☆30Updated 3 months ago
- ☆12Updated 3 years ago
- add true-negative SVs from a population callset to a truth-set.☆15Updated 3 years ago
- Long-read splice alignment with high accuracy☆63Updated 11 months ago
- A tool set to assess the quality of the per read phasing and reduce the errors.☆12Updated 5 years ago
- A simple tool to fix PacBio fasta/q that was not properly split into subreads☆15Updated 4 years ago
- ☆34Updated 5 years ago