hmmer

There are 1 repository under hmmer topic.

• tseemann / barrnap

  :microscope: :leo: Bacterial ribosomal RNA predictor

  rnahmmerrnammerhmm-modelrrnaannotationsribosomal
  Language:Perl 210

• althonos / pyhmmer

  Cython bindings and Python interface to HMMER3.

  bioinformaticscython-libraryhidden-markov-modelhmmerhmmer3python-bindingspython-librarysequence-analysis
  Language:Cython 119

• PedroMTQ / mantis

  A package to annotate protein sequences

  bioinformaticshmmermantisprotein-annotationprotein-function-prediction
  Language:Python 52

• sestaton / HMMER2GO

  Annotate DNA sequences for Gene Ontology terms

  hmmergeneorfsgene-annotation
  Language:Perl 40

• arendsee / rhmmer

  Simple R utilities for working with HMMER

  hmmerbioinformatics
  Language:R 18

• EnzoAndree / HmmPy

  A Pure-Python parser of HMMER3 output

  hmmscanhmmerfilterpython-parserhmmbioinformaticsbiological-data-analysis
  Language:Python 17

• BFL-lab / Mfannot

  MFannot is a program for the annotation of mitochondrial and plastid genomes

  bioperlblastdocker-containererpingenomehmmermitochondrialmusclepipelinetbl2asnumac
  Language:Perl 16

• NAL-i5K / genomics-workspace

  Django website project for common sequence search tools.

  djangoblasthmmerclustalbioinformaticsdjango-applicationdjango-blastdjango-hmmerdjango-clustalncbi-blastgenomicssequence-alignmentgenomics-visualization
  Language:JavaScript 15

• Arkadiy-Garber / MagicLamp

  A platform for targeted annotation of (meta)genomic and (meta)transcriptomic datasets using HMM sets.

  hmmshmmerfegenieannotationgenomicsmetagenomeironmicrobialrespirationmagnetosomeslithogenielithotrophy
  Language:HTML 13
• Pynteny

  Robaina / Pynteny

  Query sequence database by HMMs arranged in predefined synteny structure

  bioinformaticsgenomicshmmermetagenomicsprokaryotic-genomessyntenyhmmpythonsynteny-blockcomputational-biology
  Language:Python 13

• MGEScan / mgescan

  A Galaxy based system for identifying retrotransposons in genome

  galaxynonltrmgescanbioinformaticsltrhmmer
  Language:Perl 5

• yuanj82 / auto-hmmer

  Automated hmmer retrieval program.

  actionhmmerpythonbioinformatics
  Language:Python 4

• chtsai0105 / dbcanlight

  A lightweight rewrite of run_dbcan for better multithread performance

  bioinformaticsdbcanhmmer
  Language:Python 3

• russelllab / precog

  An ML-based predictor of GPCR/G-protein couplings using only sequence information

  gpcrmachine-learningvisualizationhmmerbioinformaticsscikitlearn-machine-learning
  Language:Python 3

• ctSkennerton / kegg_hmm_models

  Create HMMs from KEGG orthologs

  bioinformaticskeggkegg-pathway-databasekegg-orthologhmmerhmmhidden-markov-model
  Language:Makefile 2

• ipb-jianyang / eCIS-screen

  This repository contains the code used for screening putative extracellular Contractile Injection System (eCIS) loci from genomic sequences.

  bioinformatics-pipelinebacterial-genomesbioperlhmmer
  Language:Perl 2

• MetAnnotate / MetAnnotate

  MetAnnotate is a tool and web application for taxonomic profiling of shotgun metagenomes.

  metagenomicsmetagenomic-analysishmmhmmer
  Language:JavaScript 2

• philippmuench / hmmvis

  basic visualization of hmm profile matches to multiple fasta files

  hidden-markov-modelhmmervisualizationfasta
  Language:Python 2

• virtool / workflow-nuvs

  A workflow for identifying novel viruses in Virtool

  virtoolworkflowspadeshmmer
  Language:Python 2

• Daniel-Ze / NLRextract

  Find NLR hmms in protein sequences.

  hmmerpfamnlropen-sourceopen-science
  Language:Shell 1

• goldman-gp-ebi / protein-identification-manuscript

  hidden-markov-modelhmmhmmerhmmer3protein-identificationnanopore-protein-sequencingprotein-sequencing
  Language:Jupyter Notebook 1

• suecharo / CPFF

  hmmerkerasbioinfomaticspfambioinformatics-tool
  Language:Python 1

• AaronFeller / Cinful_v2

  HMMER-based microcin search using full microcin sequences and double-glycine signal region.

  antimicrobial-peptidesbacterial-genome-analysisbioinformatics-pipelineblasthidden-markov-modelhmmhmmerhmmer3searchmicrocin
  Language:Jupyter Notebook 0

• BioGenies / PlastoGram

  Predicts subplastid localization of proteins along with sequence origin (plastid- or nuclear-encoded).

  bioinformaticschloroplasthmm-profilehmmerplastidr-packagerandom-forestsubchloroplast-localizationsubplastid-localization
  Language:R 0

• michalbukowski / pfam-genomes

  Snakemake pipeline for searching genomic sequences for those encoding proteins containing domains of choice

  hmmerpfamprotein-domainsprotein-sequenceproteinssignalpsnakemake
  Language:Python 0

• chris-rands / annotated_profile_HMMs

  Sets of protein familes represented as profile HMMs annotated for antibiotic resistance and virulence function.

  hmmantibiotic-resistancevirulencehmmer

• fungs / stockholm2cigar

  Convert Stockholm alignments as output by HMMER to cigar strings

  bioinformaticshmmer
  Language:Python