Alternatives and similar repositories for ampliseq:

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

• nf-core / mag
  Assembly and binning of metagenomes
  ☆228Updated this week
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆218Updated 4 years ago
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆314Updated 8 months ago
• NBISweden / GAAS
  Genome Assembly and Annotation Service code
  ☆207Updated last year
• nf-core / taxprofiler
  Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
  ☆136Updated this week
• jenniferlu717 / KrakenTools
  KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
  ☆326Updated last year
• broadinstitute / pilon
  Pilon is an automated genome assembly improvement and variant detection tool
  ☆347Updated 2 years ago
• jenniferlu717 / Bracken
  Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…
  ☆301Updated 6 months ago
• MGXlab / CAT_pack
  CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…
  ☆202Updated 2 months ago
• biobakery / biobakery_workflows
  bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validate…
  ☆106Updated 3 weeks ago
• MrOlm / drep
  Rapid comparison and dereplication of genomes
  ☆275Updated last month
• tseemann / barrnap
  Bacterial ribosomal RNA predictor
  ☆234Updated last year
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆134Updated 3 years ago
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆236Updated 10 months ago
• Ecogenomics / CheckM
  Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
  ☆360Updated 5 months ago
• gtonkinhill / panaroo
  An updated pipeline for pangenome investigation
  ☆280Updated last week
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆304Updated last year
• benjjneb / decontam
  Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data
  ☆153Updated last year
• jtamames / SqueezeMeta
  A complete pipeline for metagenomic analysis
  ☆392Updated this week
• sanger-pathogens / Roary
  Rapid large-scale prokaryote pan genome analysis
  ☆332Updated 2 years ago
• biobakery / humann
  HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).
  ☆184Updated 6 months ago
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆295Updated 2 months ago
• ncbi / pgap
  NCBI Prokaryotic Genome Annotation Pipeline
  ☆326Updated 2 weeks ago
• nf-core / fetchngs
  Pipeline to fetch metadata and raw FastQ files from public databases
  ☆164Updated 2 weeks ago
• AstrobioMike / GToTree
  A user-friendly workflow for phylogenomics
  ☆204Updated last week
• tseemann / shovill
  ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads
  ☆216Updated last year
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆241Updated 3 months ago
• tseemann / mlst
  Scan contig files against PubMLST typing schemes
  ☆211Updated 2 years ago
• TransDecoder / TransDecoder
  TransDecoder source
  ☆284Updated 4 months ago
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆191Updated 2 weeks ago