CMU-SAFARI / AirLift
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 9 months ago
Alternatives and similar repositories for AirLift:
Users that are interested in AirLift are comparing it to the libraries listed below
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Updated 2 years ago
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆17Updated 4 years ago
- URMAP ultra-fast read mapper☆38Updated 4 years ago
- Scrooge is a high-performance pairwise sequence aligner based on the GenASM algorithm. Scrooge includes three novel algorithmic improveme…☆37Updated last year
- A long-read analysis toolbox for cancer and population genomics☆21Updated last month
- A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.☆18Updated 3 weeks ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated 10 months ago
- HAT is a set of tools for calling de novo variants from whole-genome sequencing data.☆23Updated last year
- ☆16Updated 2 months ago
- Genotyping of segregating mobile elements insertions☆19Updated 3 years ago
- Phase reads, assemble haplotypes and detect SVs☆19Updated 4 years ago
- Hidden Markov Model based Copy number caller☆20Updated 4 months ago
- Population-wide Deletion Calling☆35Updated 6 months ago
- Kmer based genotyper for short reads.☆23Updated 3 years ago
- PopSTR - A Population based microsatellite genotyper☆32Updated last year
- Method to optimally select samples for validation and resequencing☆27Updated 3 years ago
- Profile HMM-based hybrid error correction algorithm for long reads☆20Updated 6 years ago
- Working space for the GIAB TR benchmarking project☆21Updated 4 months ago
- De Bruijn graph construction for large k.☆18Updated 3 years ago
- Structural variant (SV) analysis tools☆35Updated 8 months ago
- ☆13Updated last year
- The repository keeps the files for an IPython notebook on about how to make a simple genome assembler using python☆31Updated 6 years ago
- Immuological gene typing and annotation for genome assembly☆32Updated last week
- building a human pangenome from the HPRCy1v2 genbank accessioned assemblies☆14Updated 2 years ago
- A wrapper for calling small variants from human germline high-coverage single-sample Illumina data☆13Updated 5 years ago
- DNA multiple sequence aligner, official version from Penn State's Miller Lab☆31Updated 5 years ago
- ☆14Updated 11 months ago
- ☆16Updated 3 years ago