Alternatives and similar repositories for GAAS

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

• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆265Updated 2 weeks ago
• TransDecoder / TransDecoder
  TransDecoder source
  ☆292Updated 9 months ago
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆235Updated 4 years ago
• Dfam-consortium / RepeatModeler
  De-Novo Repeat Discovery Tool
  ☆216Updated 2 weeks ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆215Updated this week
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆311Updated 3 months ago
• a-slide / pycoQC
  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…
  ☆281Updated 8 months ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆260Updated 2 years ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆269Updated 5 months ago
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆271Updated last year
• sortmerna / sortmerna
  SortMeRNA: next-generation sequence filtering and alignment tool
  ☆270Updated 6 months ago
• ndierckx / NOVOPlasty
  NOVOPlasty - The organelle assembler and heteroplasmy caller
  ☆189Updated last year
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆243Updated last year
• nf-core / mag
  Assembly and binning of metagenomes
  ☆241Updated this week
• PASApipeline / PASApipeline
  PASA software
  ☆188Updated 5 months ago
• marbl / verkko
  Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…
  ☆352Updated 2 weeks ago
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆203Updated this week
• aidenlab / 3d-dna
  3D de novo assembly (3D DNA) pipeline
  ☆213Updated last year
• schneebergerlab / syri
  Synteny and Rearrangement Identifier
  ☆396Updated 2 months ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆141Updated 3 years ago
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆325Updated last year
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆234Updated 2 months ago
• wyp1125 / MCScanX
  MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!
  ☆259Updated 6 months ago
• roblanf / minion_qc
  Quality control for MinION sequencing data
  ☆217Updated 2 years ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆227Updated 6 months ago
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆231Updated this week
• schatzlab / genomescope
  Fast genome analysis from unassembled short reads
  ☆292Updated last year
• timflutre / trimmomatic
  Read trimming tool for Illumina NGS data.
  ☆139Updated 10 years ago
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆312Updated 2 years ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆170Updated last year