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
- ☆16Updated 11 months ago
- A long-read analysis toolbox for cancer and population genomics☆23Updated 5 months ago
- Population-wide Deletion Calling☆35Updated 8 months ago
- A wrapper for calling small variants from human germline high-coverage single-sample Illumina data☆14Updated 6 years ago
- Scrooge is a high-performance pairwise sequence aligner based on the GenASM algorithm. Scrooge includes three novel algorithmic improveme…☆38Updated 2 years ago
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆18Updated 5 years ago
- Reducing reference bias using multiple population reference genomes☆34Updated last year
- URMAP ultra-fast read mapper☆38Updated 5 years ago
- A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.☆18Updated last month
- Structural variant (SV) analysis tools☆39Updated last year
- Expedite large-scale identification of CNVs within predefined genomic regions. Online app available for those with GP2 Tier 2 Access.☆12Updated 6 months ago
- Run multiple programs to check if a VCF is usable☆11Updated 5 years ago
- Genotyping of segregating mobile elements insertions☆19Updated 4 years ago
- Exact Tandem Repeat Finder (not a TRF replacement)☆50Updated 6 years ago
- Integrated toolkit for analysis and evaluation of annotated genomes☆25Updated 4 months ago
- The repository keeps the files for an IPython notebook on about how to make a simple genome assembler using python☆30Updated 7 years ago
- A tool to extract LOH blocks from VCF, BAM and FASTA data☆25Updated last year
- Immuological gene typing and annotation for genome assembly☆38Updated 9 months ago
- A tool set to assess the quality of the per read phasing and reduce the errors.☆13Updated 5 years ago
- Detect and phase minor SNVs from long-read sequencing data☆14Updated 3 years ago
- ☆14Updated 2 years ago
- Functions to compare a SV call sets against a truth set.☆30Updated 6 months ago
- PopSTR - A Population based microsatellite genotyper☆33Updated 2 years ago
- ☆21Updated 9 months ago
- Profile HMM-based hybrid error correction algorithm for long reads☆21Updated 7 years ago
- TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain☆21Updated last year
- A python wrapper around SURVIVOR☆20Updated last year
- A module for improving the insertion sequences of structural variant calls☆33Updated 4 years ago
- A simple tool to fix PacBio fasta/q that was not properly split into subreads☆16Updated 4 years ago