Alternatives and similar repositories for perbase

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

• brentp / echtvar
  using all the bits for echt rapid variant annotation and filtering
  ☆152Updated 7 months ago
• COMBINE-lab / oarfish
  long read RNA-seq quantification
  ☆91Updated last week
• fulcrumgenomics / fqgrep
  Grep for FASTQ files
  ☆102Updated 7 months ago
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆114Updated last year
• brentp / jigv
  igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"
  ☆130Updated last month
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆120Updated last month
• quinlan-lab / bedder-rs
  an API for intersections of genomic data
  ☆73Updated this week
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆142Updated 2 months ago
• milkschen / leviosam2
  Fast and accurate coordinate conversion between assemblies
  ☆117Updated last month
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆151Updated 3 weeks ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆98Updated last year
• nanoporetech / pinfish
  Tools to annotate genomes using long read transcriptomics data
  ☆45Updated 4 years ago
• cortes-ciriano-lab / savana
  Somatic structural variant caller for long-read data
  ☆83Updated this week
• tleonardi / nanocompore
  RNA modifications detection from Nanopore dRNA-Seq data
  ☆87Updated 2 months ago
• bentsherman / nf-boost
  Experimental features for Nextflow
  ☆45Updated 2 months ago
• fulcrumgenomics / fqtk
  Fast FASTQ sample demultiplexing in Rust.
  ☆66Updated this week
• telatin / seqfu2
  seqfu - Sequece Fastx Utilities
  ☆122Updated last month
• genomic-medicine-sweden / nallo
  An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.
  ☆37Updated last week
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆110Updated last month
• mlafave / sam2pairwise
  sam2pairwise takes a SAM file and uses the CIGAR and MD tag to reconstruct the pairwise alignment of each read.
  ☆44Updated 10 years ago
• alignoth / alignoth
  Creating alignment plots from bam files
  ☆66Updated 2 weeks ago
• nf-core / oncoanalyser
  A comprehensive cancer DNA/RNA analysis and reporting pipeline
  ☆93Updated this week
• google / best
  Bam Error Stats Tool (best): analysis of error types in aligned reads.
  ☆137Updated 9 months ago
• vsbuffalo / granges
  A Rust library and command line tool for working with genomic ranges and their data.
  ☆100Updated last year
• MultiQC / MegaQC
  Web application to collect and visualise data across multiple MultiQC runs.
  ☆94Updated 11 months ago
• danrlu / nextflow_cheatsheet
  Tips for Nextflow and cheatsheet for channel operation
  ☆80Updated last year
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆137Updated last year
• Kingsford-Group / scallop
  Scallop is a reference-based transcriptome assembler for RNA-seq
  ☆91Updated 4 years ago
• SciLifeLab / TIDDIT
  TIDDIT - structural variant calling
  ☆77Updated 7 months ago
• lh3 / ref-gen
  Human reference genome analysis sets
  ☆56Updated 2 years ago