Alternatives and similar repositories for CHM13:

Users that are interested in CHM13 are comparing it to the libraries listed below

• BenLangmead / bowtie2
  A fast and sensitive gapped read aligner
  ☆711Updated 4 months ago
• nanopore-wgs-consortium / NA12878
  Data and analysis for NA12878 genome on nanopore
  ☆386Updated 2 years ago
• kblin / ncbi-genome-download
  Scripts to download genomes from the NCBI FTP servers
  ☆1,002Updated 8 months ago
• FelixKrueger / TrimGalore
  A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…
  ☆500Updated last month
• DerrickWood / kraken2
  The second version of the Kraken taxonomic sequence classification system
  ☆779Updated this week
• davidemms / OrthoFinder
  Phylogenetic orthology inference for comparative genomics
  ☆753Updated 6 months ago
• nanoporetech / dorado
  Oxford Nanopore's Basecaller
  ☆642Updated last week
• macs3-project / MACS
  MACS -- Model-based Analysis of ChIP-Seq
  ☆732Updated 2 weeks ago
• bwa-mem2 / bwa-mem2
  The next version of bwa-mem
  ☆750Updated 8 months ago
• marbl / canu
  A single molecule sequence assembler for genomes large and small.
  ☆674Updated this week
• mikolmogorov / Flye
  De novo assembler for single molecule sequencing reads using repeat graphs
  ☆825Updated this week
• lh3 / minimap2
  A versatile pairwise aligner for genomic and spliced nucleotide sequences
  ☆1,935Updated last week
• tseemann / prokka
  Rapid prokaryotic genome annotation
  ☆889Updated last year
• DaehwanKimLab / hisat2
  Graph-based alignment (Hierarchical Graph FM index)
  ☆499Updated 5 months ago
• lh3 / seqtk
  Toolkit for processing sequences in FASTA/Q formats
  ☆1,454Updated 8 months ago
• NBISweden / AGAT
  Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/
  ☆499Updated last week
• bcgsc / abyss
  Assemble large genomes using short reads
  ☆318Updated last month
• samtools / hts-specs
  Specifications of SAM/BAM and related high-throughput sequencing file formats
  ☆673Updated last week
• nf-core / rnaseq
  RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
  ☆1,016Updated this week
• s-andrews / FastQC
  A quality control analysis tool for high throughput sequencing data
  ☆500Updated last year
• Ensembl / ensembl-vep
  The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants
  ☆476Updated 3 weeks ago
• chhylp123 / hifiasm
  Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
  ☆612Updated last month
• gamcil / clinker
  Gene cluster comparison figure generator
  ☆567Updated 5 months ago
• fritzsedlazeck / Sniffles
  Structural variation caller using third generation sequencing
  ☆590Updated 2 weeks ago
• FelixKrueger / Bismark
  A tool to map bisulfite converted sequence reads and determine cytosine methylation states
  ☆417Updated this week
• pachterlab / kallisto
  Near-optimal RNA-Seq quantification
  ☆676Updated 2 weeks ago
• COMBINE-lab / salmon
  🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
  ☆803Updated 10 months ago
• arq5x / bedtools2
  bedtools - the swiss army knife for genome arithmetic
  ☆979Updated last month
• crazyhottommy / RNA-seq-analysis
  RNAseq analysis notes from Ming Tang
  ☆1,004Updated 3 years ago
• jdidion / biotools
  A list of useful bioinformatics resources
  ☆602Updated last year