Alternatives and similar repositories for fastx_toolkit

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

• timflutre / trimmomatic
  Read trimming tool for Illumina NGS data.
  ☆146Updated 10 years ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆242Updated 2 months ago
• najoshi / sickle
  Windowed Adaptive Trimming for fastq files using quality
  ☆224Updated 8 years ago
• NBISweden / GAAS
  Genome Assembly and Annotation Service code
  ☆214Updated last year
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆272Updated 3 weeks ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆277Updated 8 months ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆163Updated 2 years ago
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆257Updated last year
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆224Updated 3 months ago
• lastz / lastz
  Program for aligning DNA sequences, a pairwise aligner.
  ☆227Updated 3 months ago
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆351Updated 5 months ago
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆241Updated 4 years ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆142Updated 2 months ago
• TransDecoder / TransDecoder
  TransDecoder source
  ☆298Updated last week
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆228Updated 3 years ago
• linsalrob / fastq-pair
  Match up paired end fastq files quickly and efficiently.
  ☆152Updated last year
• 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
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆270Updated 2 years ago
• rajewsky-lab / mirdeep2
  Discovering known and novel miRNAs from small RNA sequencing data
  ☆154Updated last year
• sortmerna / sortmerna
  SortMeRNA: next-generation sequence filtering and alignment tool
  ☆277Updated last month
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆158Updated 2 years ago
• daler / gffutils
  GFF and GTF file manipulation and interconversion
  ☆308Updated last year
• jstjohn / SeqPrep
  Tool for stripping adaptors and/or merging paired reads with overlap into single reads.
  ☆144Updated 9 years ago
• aidenlab / 3d-dna
  3D de novo assembly (3D DNA) pipeline
  ☆216Updated last year
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆318Updated 3 years ago
• roblanf / minion_qc
  Quality control for MinION sequencing data
  ☆215Updated 2 years ago
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆211Updated 3 months ago
• aquaskyline / SOAPdenovo2
  Next generation sequencing reads de novo assembler.
  ☆237Updated 3 weeks ago
• Illumina / ExpansionHunter
  A tool for estimating repeat sizes
  ☆198Updated last year
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆109Updated 2 years ago