Alternatives and similar repositories for fastx_toolkit

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

• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆255Updated 6 months ago
• najoshi / sickle
  Windowed Adaptive Trimming for fastq files using quality
  ☆226Updated 8 years ago
• timflutre / trimmomatic
  Read trimming tool for Illumina NGS data.
  ☆149Updated 10 years ago
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆323Updated 4 years ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆285Updated 11 months ago
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆217Updated 2 months ago
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆244Updated 4 years ago
• NBISweden / GAAS
  Genome Assembly and Annotation Service code
  ☆217Updated 2 years ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆165Updated 2 years ago
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆357Updated 9 months ago
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆288Updated last month
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆143Updated 6 months ago
• sortmerna / sortmerna
  SortMeRNA: next-generation sequence filtering and alignment tool
  ☆284Updated 5 months ago
• aquaskyline / SOAPdenovo2
  Next generation sequencing reads de novo assembler.
  ☆239Updated 4 months ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆230Updated 6 months ago
• aidenlab / 3d-dna
  3D de novo assembly (3D DNA) pipeline
  ☆221Updated 2 years ago
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆210Updated this week
• daler / gffutils
  GFF and GTF file manipulation and interconversion
  ☆313Updated this week
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆171Updated 2 years ago
• epi2me-labs / wf-human-variation
  ☆149Updated last week
• alimanfoo / pysamstats
  A fast Python and command-line utility for extracting simple statistics against genome positions based on sequence alignments from a SAM …
  ☆195Updated 3 weeks ago
• genome / pindel
  Pindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants …
  ☆176Updated 6 years ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆277Updated 2 years ago
• abyzovlab / CNVnator
  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads
  ☆232Updated 3 years ago
• linsalrob / fastq-pair
  Match up paired end fastq files quickly and efficiently.
  ☆153Updated last year
• lastz / lastz
  Program for aligning DNA sequences, a pairwise aligner.
  ☆239Updated 7 months ago
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆263Updated last year
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆278Updated 2 years ago
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆213Updated 3 years ago
• lh3 / wgsim
  Reads simulator
  ☆283Updated 4 years ago