Alternatives and similar repositories for bacterial_assembly_pipeline

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

• EGTortuero / viga
  De novo VIral Genome Annotator
  ☆23Updated 11 months ago
• phac-nml / neptune
  Neptune: Genomic Signature Discovery
  ☆20Updated 9 months ago
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆25Updated 2 years ago
• ewissel / hAMRoaster
  hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performance
  ☆22Updated last year
• jfass / apc
  (a) (p)erfect (c)ircle? ... tests DNA sequences for overlapping ends, then trims and rejoins, and aligns reads to test the join
  ☆11Updated 4 years ago
• rpetit3 / pasty
  A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates
  ☆12Updated last year
• pg-space / panspace
  Embedding-based indexing for compact storage, rapid querying, and curation of bacterial pan-genomes
  ☆11Updated last month
• vice87 / gam-ngs
  Genomic Assemblies Merger for NGS
  ☆26Updated last year
• Microbiology / ccontigs
  Detect contigs of complete circular genomes
  ☆23Updated 6 years ago
• CFIA-NCFAD / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆22Updated last month
• genomic-medicine-sweden / gms_16S
  A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.
  ☆14Updated this week
• smangul1 / MiCoP
  MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.
  ☆15Updated 3 years ago
• josephpetrone / RESCUE
  Resolving Species Level Classification Using Emu
  ☆14Updated last year
• kwongj / roary2fripan
  Formats Roary output for viewing in FriPan
  ☆11Updated 7 years ago
• AfZheng126 / MORA
  MetagenOmic read Re-Assigner and abundance quantifier
  ☆19Updated 7 months ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆21Updated 7 months ago
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆38Updated 5 months ago
• KThorellGroup / BACTpipe
  BACTpipe: An assembly and annotation pipeline for bacterial genomics
  ☆20Updated 8 months ago
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆18Updated 9 years ago
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆25Updated last year
• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 5 years ago
• zheminzhou / SPARSE
  Strain Prediction and Analysis with Representative SEquence
  ☆20Updated 8 months ago
• mbhall88 / tbpore
  Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data
  ☆11Updated last year
• bcthomas / pullseq
  Utility program for extracting sequences from a fasta/fastq file
  ☆36Updated 8 months ago
• metasnv-tool / metaSNV
  MetaSNV, a metagenomic SNV calling pipeline.
  ☆20Updated 3 years ago
• stjacqrm / centroid
  tool to determine optimal refrerence genome given a set of fasta files
  ☆15Updated 2 years ago
• liaoherui / VirStrain
  An RNA virus strain-level identification tool for short reads.
  ☆21Updated last year
• pollardlab / MIDAS
  Metagenomic Intra-Species Diversity Analysis (MIDAS)
  ☆40Updated 11 months ago
• sanger-pathogens / panito
  Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment
  ☆16Updated 6 years ago
• aesheppard / TETyper
  transposable element typing pipeline
  ☆19Updated last year