Alternatives and similar repositories for genomenotebook

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

• bioforensics / pytaxonkit
  Python bindings for the TaxonKit library
  ☆40Updated 4 months ago
• jonas-fuchs / BAMdash
  create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks
  ☆54Updated 2 months ago
• shenwei356 / unikmer
  A versatile toolkit for k-mers with taxonomic information
  ☆80Updated 2 months ago
• dayzerodx / counterr
  ☆31Updated last year
• jonas-fuchs / varVAMP
  Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
  ☆43Updated 2 months ago
• Wytamma / snk
  Snakemake workflow management system and CLI generation tool
  ☆62Updated last week
• BackofenLab / CRISPRidentify
  ☆31Updated 10 months ago
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆70Updated 4 months ago
• foerstner-lab / gffpandas
  Parse GFF3 into Pandas dataframes
  ☆30Updated last year
• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆85Updated 3 years ago
• apcamargo / taxopy
  A Python package for obtaining complete lineages and the lowest common ancestor (LCA) from a set of taxonomic identifiers
  ☆50Updated 8 months ago
• nf-core / multiplesequencealign
  A pipeline to run and systematically evaluate Multiple Sequence Alignment (MSA) methods.
  ☆39Updated 2 weeks ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆55Updated 4 months ago
• NicolaDM / MAPLE
  MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.
  ☆52Updated last week
• hsinnan75 / GSAlign
  GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison
  ☆59Updated last year
• JLSteenwyk / orthohmm
  Improved Inference of Ortholog Groups using Hidden Markov Models
  ☆37Updated last month
• novoalab / SeqTagger
  Super-fast and accurate demultiplexing of direct RNA-seq runs.
  ☆17Updated 3 months ago
• jsh58 / NGmerge
  Merging paired-end reads and removing adapters
  ☆46Updated last month
• PacificBiosciences / kineticsTools
  Tools for detecting DNA modifications from single molecule, real-time sequencing data
  ☆26Updated 3 years ago
• citiususc / BigSeqKit
  BigSeqKit: a parallel Big Data toolkit to process FASTA and FASTQ files at scale
  ☆56Updated 2 years ago
• Psy-Fer / blue-crab
  lossless nanopore pod5 <=> s/blow5 file conversion
  ☆44Updated 2 months ago
• kshulgina / codetta
  ☆51Updated 5 months ago
• ArcInstitute / xsra
  An efficient CLI to extract sequences from the SRA
  ☆114Updated this week
• deprekate / PHANOTATE
  PHANOTATE: a gene caller for phages.
  ☆78Updated 11 months ago
• leylabmpi / Struo2
  Scalable creating/updating of metagenome profiling databases
  ☆62Updated 4 months ago
• sirselim / guppy_parameter_optimiser
  A small bash script that automates sweeping Guppy parameters in an attempt to optimise basecalling rate
  ☆30Updated 3 years ago
• PedroMTQ / mantis
  A package to annotate protein sequences
  ☆60Updated 8 months ago
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆27Updated 2 years ago
• PAiewsakun / GRAViTy
  ☆17Updated 3 years ago
• adelq / dnds
  Calculate dN/dS ratio precisely (Ka/Ks) using a codon-by-codon counting method.
  ☆25Updated 7 years ago