Alternatives and similar repositories for liftover

Users that are interested in liftover are comparing it to the libraries listed below

• liguowang / CrossMap
  CrossMap is a python program to lift over genome coordinates from one genome version to another.
  ☆85Updated last month
• ygidtu / trackplot
  trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…
  ☆93Updated 2 months ago
• phageghost / python-genome-browser
  Tools for making plots of genomic datasets in a genome-browser-like format
  ☆32Updated 8 months ago
• open2c / pairtools
  Extract 3D contacts (.pairs) from sequencing alignments
  ☆113Updated 3 weeks ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆114Updated 3 years ago
• nloyfer / meth_atlas
  ☆49Updated 3 years ago
• vanallenlab / comut
  CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots
  ☆94Updated last year
• vanheeringen-lab / gimmemotifs
  Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed in…
  ☆120Updated last year
• ENCODE-DCC / hic-pipeline
  HiC uniform processing pipeline
  ☆60Updated last year
• kircherlab / CADD-scripts
  CADD scripts release for offline scoring. For more information about CADD, please visit our website
  ☆84Updated 2 months ago
• lh3 / hickit
  TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
  ☆110Updated 4 years ago
• xjtu-omics / msisensor-pro
  Microsatellite Instability (MSI) detection using high-throughput sequencing data.
  ☆110Updated 4 months ago
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆73Updated last year
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆116Updated last year
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆73Updated last year
• freeseek / score
  Tools to work with GWAS-VCF summary statistics files
  ☆123Updated 3 weeks ago
• broadinstitute / pyqtl
  Collection of analysis tools for quantitative trait loci
  ☆57Updated last month
• ucagenomix / sicelore
  Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…
  ☆75Updated 2 years ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 5 months ago
• ay-lab / fithic
  Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…
  ☆88Updated 2 years ago
• konstantint / pyliftover
  Pure-python implementation of UCSC liftOver genome coordinate conversion
  ☆97Updated last year
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆63Updated 3 months ago
• XiaoTaoWang / NeoLoopFinder
  A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
  ☆67Updated last year
• ay-lab / dcHiC
  dcHiC: Differential compartment analysis for Hi-C datasets
  ☆72Updated last year
• BUStools / bustools
  Tools for working with BUS files
  ☆101Updated 2 months ago
• freeseek / mocha
  MOsaic CHromosomal Alterations (MoChA) caller
  ☆86Updated 5 months ago
• Genotek / ClassifyCNV
  ClassifyCNV: a tool for clinical annotation of copy-number variants
  ☆66Updated 2 years ago
• gatk-workflows / gatk4-rnaseq-germline-snps-indels
  Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools
  ☆78Updated 3 years ago
• XiaoTaoWang / HiCLift
  A fast and efficient tool for converting chromatin interaction data between genome assemblies
  ☆73Updated 2 weeks ago
• bioinfo-pf-curie / TMB
  Tumor Mutational Burden
  ☆62Updated last week