Alternatives and similar repositories for HTStream

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

• schmeing / ReSeq
  More realistic simulator for genomic DNA sequences from Illumina machines that achieves a similar k-mer spectrum as the original
  ☆51Updated 3 years ago
• nanoporetech / pipeline-umi-amplicon
  Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers
  ☆35Updated last year
• Gabaldonlab / perSVade
  perSVade: personalized Structural Variation detection
  ☆40Updated 3 months ago
• wdecoster / nanolyse
  Remove lambda phage reads from a fastq file
  ☆29Updated 2 years ago
• Gaius-Augustus / MakeHub
  Fully automated generation of UCSC assembly hubs
  ☆35Updated last year
• nygenome / taxmaps
  Ultra-efficient taxonomic mapping of NGS data
  ☆51Updated 4 years ago
• schatzlab / appliedgenomics2021
  Materials for Spring 2021 Applied Genomics Course
  ☆53Updated 4 years ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆55Updated 6 months ago
• cpockrandt / PhyloCSFpp
  PhyloCSF++ computes PhyloCSF tracks for whole-genome multiple sequence alignments, scores single MSA, annotates CDS features in GFF/GTF f…
  ☆31Updated 3 years ago
• OpenGene / UniqueKMER
  Generate unique KMERs for every contig in a FASTA file
  ☆48Updated 3 years ago
• uio-cels / NucDiff
  In-depth characterization and annotation of differences between two sets of DNA sequences
  ☆63Updated 5 years ago
• hsinnan75 / GSAlign
  GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison
  ☆60Updated last year
• nanoporetech / ont_tutorial_basicqc
  A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence_summary.txt
  ☆31Updated 5 years ago
• xfengnefx / hifiasm-meta
  hifiasm_meta - de novo metagenome assembler, based on hifiasm, a haplotype-resolved de novo assembler for PacBio Hifi reads.
  ☆69Updated last month
• shenwei356 / unikmer
  A versatile toolkit for k-mers with taxonomic information
  ☆81Updated 4 months ago
• NBISweden / pipelines-nextflow
  A set of workflows written in Nextflow for Genome Annotation.
  ☆46Updated last year
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆51Updated 6 years ago
• TimoLassmann / samstat
  SAMStat displays various properties of next-generation sequencing reads stored in SAM/BAM format.
  ☆24Updated 2 years ago
• LANL-Bioinformatics / PhaME
  Given a reference, PhaME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to constr…
  ☆33Updated 2 years ago
• thackl / minidot
  Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2
  ☆77Updated 9 years ago
• cboursnell / transfuse
  Merge transcriptome assemblies
  ☆31Updated 9 years ago
• PacificBiosciences / bam2fastx
  Converting and demultiplexing of PacBio BAM files into gzipped fasta and fastq files.
  ☆39Updated 2 years ago
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆68Updated 7 years ago
• AliTVTeam / AliTV
  Visualize whole genome alignments as linear maps
  ☆74Updated 4 months ago
• fanglab / mbin
  mBin: a methylation-based binning framework for metagenomic SMRT sequencing reads
  ☆25Updated 3 years ago
• telatin / bamtocov
  🏔 coverage extraction from BAM/CRAM files, supporting targets 📊  
  ☆65Updated 3 weeks ago
• epi2me-labs / fastcat
  Simple utility to concatenate .fastq(.gz) files whilst creating a summary of the sequences.
  ☆51Updated last month
• EichlerLab / smrtsv2
  Structural variant caller
  ☆55Updated 4 years ago
• B-UMMI / long-read-catalog
  catalog for long-read sequencing tools
  ☆32Updated 2 years ago
• transXpress / transXpress
  transXpress: a Snakemake pipeline for streamlined de novo transcriptome assembly and annotation
  ☆28Updated last year