Alternatives and similar repositories for sdust

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

• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆49Updated 5 years ago
• VGP / vgp-tools
  ☆28Updated 2 months ago
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆39Updated 5 years ago
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆37Updated 5 years ago
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆58Updated 10 months ago
• UCSC-nanopore-cgl / MarginPolish
  MarginPolish: Graph based assembly polishing
  ☆46Updated 4 years ago
• PacificBiosciences / bam2fastx
  Converting and demultiplexing of PacBio BAM files into gzipped fasta and fastq files.
  ☆37Updated 2 years ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆54Updated 3 years ago
• bcgsc / ntLink
  Minimizer-based assembly scaffolding and mapping using long reads
  ☆42Updated 8 months ago
• lh3 / minisv
  Lightweight mosaic/somatic SV caller for long reads (WIP)
  ☆29Updated 6 months ago
• codialab / GFAffix
  GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.
  ☆36Updated 3 weeks ago
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆30Updated 2 months ago
• uio-cels / NucDiff
  In-depth characterization and annotation of differences between two sets of DNA sequences
  ☆60Updated 5 years ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 2 months ago
• lh3 / calN50
  Compute N50/NG50 and auN/auNG
  ☆32Updated last year
• ptrebert / project-diploid-assembly
  Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
  ☆16Updated last year
• vpc-ccg / sedef
  Identification of segmental duplications in the genome
  ☆27Updated 3 years ago
• mrvollger / SDA
  Segmental Duplication Assembler (SDA).
  ☆44Updated 2 years ago
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 2 months ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• HaploKit / vechat
  Correcting errors in noisy long reads using variation graphs
  ☆51Updated 2 years ago
• vgteam / vg_wdl
  Workflow Description Language (WDL) scripts for common vg workflows
  ☆20Updated last month
• lh3 / htsbox
  My experimental tools on top of htslib. NOT OFFICIAL!!!
  ☆56Updated last year
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆22Updated 10 months ago
• Adamtaranto / teloclip
  A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
  ☆38Updated 2 months ago
• Psy-Fer / blue-crab
  lossless nanopore pod5 <=> s/blow5 file conversion
  ☆40Updated 2 months ago
• kage-genotyper / kage
  Alignment-free genotyper for SNPs and short indels, implemented in Python.
  ☆49Updated 3 months ago
• fritzsedlazeck / SVCollector
  Method to optimally select samples for validation and resequencing
  ☆27Updated 4 years ago
• benedictpaten / marginPhase
  ☆34Updated 5 years ago
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆33Updated this week