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.
  ☆84Updated 3 months ago
• kircherlab / CADD-scripts
  CADD scripts release for offline scoring. For more information about CADD, please visit our website
  ☆81Updated last week
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆113Updated 2 years ago
• phageghost / python-genome-browser
  Tools for making plots of genomic datasets in a genome-browser-like format
  ☆32Updated 5 months ago
• open2c / pairtools
  Extract 3D contacts (.pairs) from sequencing alignments
  ☆112Updated 4 months ago
• konstantint / pyliftover
  Pure-python implementation of UCSC liftOver genome coordinate conversion
  ☆95Updated last year
• broadinstitute / PhylogicNDT
  ☆73Updated last month
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 3 months ago
• freeseek / score
  Tools to work with GWAS-VCF summary statistics files
  ☆119Updated 8 months ago
• broadinstitute / pyqtl
  Collection of analysis tools for quantitative trait loci
  ☆55Updated 2 months ago
• odelaneau / shapeit5
  Segmented HAPlotype Estimation and Imputation Tool
  ☆80Updated 9 months ago
• signalbash / how_are_we_stranded_here
  Check strandedness of RNA-Seq fastq files
  ☆124Updated 2 years ago
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆56Updated 2 years ago
• bmvdgeijn / WASP
  WASP: allele-specific pipeline for unbiased read mapping and molecular QTL discovery
  ☆105Updated 4 years ago
• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆132Updated 11 months ago
• xjtu-omics / msisensor-pro
  Microsatellite Instability (MSI) detection using high-throughput sequencing data.
  ☆108Updated 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
  ☆109Updated 4 years ago
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆102Updated 6 months ago
• BUStools / bustools
  Tools for working with BUS files
  ☆99Updated last week
• 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…
  ☆73Updated 2 years ago
• vanallenlab / comut
  CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots
  ☆92Updated 10 months ago
• sbslee / fuc
  Frequently used commands in bioinformatics
  ☆55Updated 7 months ago
• vanheeringen-lab / gimmemotifs
  Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed in…
  ☆119Updated last year
• gatk-workflows / gatk4-rnaseq-germline-snps-indels
  Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools
  ☆76Updated 3 years ago
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆70Updated last year
• parklab / xTea
  Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
  ☆111Updated last month
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated last year
• igvteam / igv-notebook
  Module for embedding igv.js in an IPython notebook
  ☆75Updated 3 months ago
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆113Updated 4 months ago
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆115Updated 10 months ago