jstjohn / SeqPrep

Related projects ⓘ

Alternatives and complementary repositories for SeqPrep

• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆125Updated 2 years ago
• moiexpositoalonsolab / grenepipe
  A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles.
  ☆93Updated last month
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆124Updated 3 years ago
• jtlovell / GENESPACE
  ☆191Updated 3 months ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆130Updated 3 weeks ago
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• parklab / bamsnap
  ☆111Updated 2 weeks ago
• MariaNattestad / Assemblytics
  Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…
  ☆137Updated 2 weeks ago
• NAL-i5K / GFF3toolkit
  Python programs for processing GFF3 files
  ☆95Updated 7 months ago
• mitenjain / nanopore
  UCSC Nanopore group's software pipeline for reference-based sequence analysis
  ☆53Updated 9 years ago
• MikkelSchubert / adapterremoval
  AdapterRemoval v2 - rapid adapter trimming, identification, and read merging
  ☆105Updated 2 months ago
• CompSynBioLab-KoreaUniv / FunGAP
  FunGAP: fungal Genome Annotation Pipeline
  ☆109Updated last year
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆182Updated 6 months ago
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆136Updated 8 months ago
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆96Updated last year
• PacificBiosciences / DevNet
  The DevNet project on github stores the PacBio DevNet website.
  ☆115Updated 6 years ago
• Kingsford-Group / scallop
  Scallop is a reference-based transcriptome assembler for RNA-seq
  ☆89Updated 3 years ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆154Updated last year
• PacificBiosciences / pb-assembly
  PacBio Assembly Tool Suite: Reads in ⇨ Assembly out
  ☆113Updated 4 years ago
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆191Updated 10 months ago
• epi2me-labs / wf-human-variation
  ☆105Updated this week
• SorenKarst / longread_umi
  ☆76Updated 4 years ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆128Updated last year
• wdecoster / chopper
  ☆151Updated 2 months ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆80Updated 2 years ago
• giesselmann / nanopype
  Snakemake pipelines for nanopore sequencing data archiving and processing
  ☆88Updated 2 years ago
• biocorecrg / master_of_pores
  Nextflow pipeline for analysis of direct RNA Nanopore reads
  ☆93Updated last month
• hall-lab / svtyper
  Bayesian genotyper for structural variants
  ☆126Updated 3 years ago
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆145Updated 3 weeks ago