Alternatives and similar repositories for scallop

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

• Oshlack / Lace
  Building SuperTranscripts: A linear representation of transcriptome data
  ☆68Updated 4 years ago
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆142Updated 2 months ago
• lh3 / bfc
  High-performance error correction for Illumina resequencing data
  ☆73Updated 9 years ago
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆114Updated last year
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆98Updated last year
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆103Updated 5 years ago
• fbreitwieser / bamcov
  Quickly calculate and visualize sequence coverage in alignment files
  ☆100Updated 6 years ago
• Oshlack / Corset
  Software for clustering de novo assembled transcripts and counting overlapping reads
  ☆76Updated 3 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆67Updated 6 months ago
• IARCbioinfo / BAM-tricks
  Tip and tricks for BAM files
  ☆86Updated 7 years ago
• nanoporetech / wub
  Tools and software library developed by the ONT Applications group
  ☆64Updated 4 years ago
• smithlabcode / preseq
  Software for predicting library complexity and genome coverage in high-throughput sequencing.
  ☆89Updated last year
• bcgsc / RNA-Bloom
  reference-free transcriptome assembly for short and long reads
  ☆108Updated last year
• 10XGenomics / supernova
  10x Genomics Linked-Read Diploid De Novo Assembler
  ☆65Updated 6 years ago
• nanoporetech / pinfish
  Tools to annotate genomes using long read transcriptomics data
  ☆45Updated 4 years ago
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆92Updated 5 years ago
• CshlSiepelLab / phast
  PHAST
  ☆77Updated this week
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago
• walaj / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆79Updated 2 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆108Updated last month
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆120Updated last month
• giesselmann / nanopype
  Snakemake pipelines for nanopore sequencing data archiving and processing
  ☆91Updated 3 years ago
• ssadedin / bazam
  A read extraction and realignment tool for next generation sequencing data
  ☆103Updated 3 years ago
• relipmoc / skewer
  ☆96Updated 3 years ago
• parklab / bamsnap
  ☆124Updated 3 months ago
• dzerbino / oases
  De novo transcriptome assembler for short reads
  ☆64Updated 7 years ago
• glennhickey / progressiveCactus
  Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
  ☆88Updated 7 years ago
• svviz / svviz
  Read visualizer for structural variants
  ☆84Updated 7 years ago