jeremymcrae / liftoverView external linksLinks
liftover for python, made fast with cython
☆96Oct 14, 2025Updated 4 months ago
Alternatives and similar repositories for liftover
Users that are interested in liftover are comparing it to the libraries listed below
Sorting:
- dv-trio provides a pipeline to call variants for a trio (father-mother-child) using DeepVariants [1]. Genomic Variant Calling Files (gVCF…☆11Feb 3, 2021Updated 5 years ago
- Pure-python implementation of UCSC liftOver genome coordinate conversion☆101Feb 8, 2024Updated 2 years ago
- Library for visualising genomic features in Python.☆15May 12, 2017Updated 8 years ago
- drunk on perbase pileups and lua expressions☆19Nov 15, 2025Updated 3 months ago
- HAT is a set of tools for calling de novo variants from whole-genome sequencing data.☆24Nov 18, 2025Updated 2 months ago
- R package for processing of GWAS output☆16Jul 9, 2024Updated last year
- Fast interval intersection library☆44Aug 20, 2025Updated 5 months ago
- Load numpy arrays and HDF5 files from VCF (variant call format)☆31Jun 27, 2017Updated 8 years ago
- DNA multiple sequence aligner, official version from Penn State's Miller Lab☆36Mar 27, 2019Updated 6 years ago
- Transfer HiFi read mappings from their own assembly contigs to a standard reference☆29Dec 30, 2025Updated last month
- TIDDIT - structural variant calling☆78Dec 8, 2025Updated 2 months ago
- Simple pileup-based variant caller☆94Apr 25, 2025Updated 9 months ago
- cython + htslib == fast VCF and BCF processing☆427Oct 13, 2025Updated 4 months ago
- Structural variant toolkit for VCFs☆397Jan 23, 2026Updated 3 weeks ago
- Wally: Visualization of aligned sequencing reads and contigs☆122Oct 9, 2025Updated 4 months ago
- Complex structural variant visualization for HiFi sequencing data☆46Oct 24, 2025Updated 3 months ago
- ☆22Oct 6, 2023Updated 2 years ago
- Genomic interval operations on Pandas DataFrames☆188Feb 2, 2026Updated 2 weeks ago
- user-friendly pipeline for GWAS fine-mapping☆12Mar 9, 2025Updated 11 months ago
- Variant Effect Prediction for Python☆16Apr 5, 2017Updated 8 years ago
- Consensus genome annotation using OMA☆31Jan 14, 2026Updated last month
- ☆16Jan 15, 2025Updated last year
- A collection of commonly used resources for complex trait genetics.☆36Feb 10, 2026Updated last week
- A CNN model to identify MEIs in WGS☆12Mar 4, 2025Updated 11 months ago
- CrossMap is a python program to lift over genome coordinates from one genome version to another.☆92Oct 31, 2025Updated 3 months ago
- Convert Tandem Repeat Finder dat file output into gff3 format☆30Nov 9, 2025Updated 3 months ago
- Fast and accurate coordinate conversion between assemblies☆118Oct 9, 2025Updated 4 months ago
- a minimal, scriptable genome browser for python☆53Dec 20, 2024Updated last year
- a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).☆21Dec 5, 2023Updated 2 years ago
- Align sequences and then parse features.☆17Oct 24, 2025Updated 3 months ago
- Visualization tool for temporal clonal evolution.☆18Mar 13, 2020Updated 5 years ago
- 肿瘤突变负荷学习笔记(tumor mutation burden)☆16Dec 10, 2019Updated 6 years ago
- Python 3 library with good support for both reading and writing VCF☆112Oct 2, 2025Updated 4 months ago
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated 9 months ago
- Useful functions for manipulating Multiplex Assay of Variant Effect datasets.☆10Feb 6, 2025Updated last year
- PhenomeXcan: mapping the genome to the phenome through the transcriptome☆11Jun 28, 2020Updated 5 years ago
- Lab notebook for people who like the command line.☆11Jun 19, 2024Updated last year
- De Bruijn graph construction for large k.☆17Aug 31, 2021Updated 4 years ago
- Location of public benchmarking; primarily final results☆18Feb 17, 2025Updated last year