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.
  ☆272Updated 3 weeks ago
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆241Updated 4 years ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆270Updated 2 years ago
• TransDecoder / TransDecoder
  TransDecoder source
  ☆298Updated last week
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆277Updated 8 months ago
• a-slide / pycoQC
  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…
  ☆283Updated 11 months ago
• Dfam-consortium / RepeatModeler
  De-Novo Repeat Discovery Tool
  ☆220Updated 2 months ago
• sortmerna / sortmerna
  SortMeRNA: next-generation sequence filtering and alignment tool
  ☆277Updated last month
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆321Updated 6 months ago
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆211Updated 3 months ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆142Updated 2 months ago
• timflutre / trimmomatic
  Read trimming tool for Illumina NGS data.
  ☆146Updated 10 years ago
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆208Updated 2 years ago
• ndierckx / NOVOPlasty
  NOVOPlasty - The organelle assembler and heteroplasmy caller
  ☆191Updated last year
• PASApipeline / PASApipeline
  PASA software
  ☆193Updated 7 months ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆224Updated 3 months ago
• oushujun / LTR_retriever
  LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…
  ☆210Updated 3 months ago
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆247Updated last year
• roblanf / minion_qc
  Quality control for MinION sequencing data
  ☆215Updated 2 years ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆242Updated 2 months ago
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆108Updated 2 years ago
• aidenlab / 3d-dna
  3D de novo assembly (3D DNA) pipeline
  ☆216Updated last year
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆234Updated 9 months ago
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆275Updated 2 years ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆171Updated last year
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆318Updated 2 years ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆158Updated 2 years ago
• tangerzhang / ALLHiC
  ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data
  ☆177Updated 11 months ago
• wyp1125 / MCScanX
  MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!
  ☆270Updated this week
• lastz / lastz
  Program for aligning DNA sequences, a pairwise aligner.
  ☆227Updated 3 months ago