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)
☆28Updated 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
- URMAP ultra-fast read mapper☆38Updated 5 years ago
- Population-wide Deletion Calling☆35Updated 9 months ago
- ☆20Updated 2 years ago
- Functions to compare a SV call sets against a truth set.☆30Updated 7 months ago
- A long-read analysis toolbox for cancer and population genomics☆23Updated 6 months ago
- Reducing reference bias using multiple population reference genomes☆34Updated last year
- ☆16Updated last year
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆26Updated last year
- Kmer based genotyper for short reads.☆23Updated 4 years ago
- Exact Tandem Repeat Finder (not a TRF replacement)☆51Updated 6 years ago
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆18Updated 5 years ago
- A wrapper for calling small variants from human germline high-coverage single-sample Illumina data☆14Updated 6 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
- add true-negative SVs from a population callset to a truth-set.☆15Updated 3 years ago
- Fast in-silico normalization algorithm for NGS data☆23Updated 4 years ago
- ☆21Updated 2 weeks ago
- Structural variant (SV) analysis tools☆40Updated last year
- Lift-over alignments from variant-aware references☆34Updated 2 years ago
- Detect and phase minor SNVs from long-read sequencing data☆14Updated 4 years ago
- ☆14Updated 2 years ago
- Phase reads, assemble haplotypes and detect SVs☆19Updated 5 years ago
- A python wrapper around SURVIVOR☆20Updated last year
- Genotyping of segregating mobile elements insertions☆19Updated 4 years ago
- A module for improving the insertion sequences of structural variant calls☆33Updated 4 years ago
- ☆12Updated 4 years ago
- Immuological gene typing and annotation for genome assembly☆38Updated 10 months ago
- Split a BAM file by haplotype support☆16Updated 8 years ago
- Hidden Markov Model based Copy number caller☆20Updated last month
- De Bruijn graph construction for large k.☆17Updated 4 years ago