althonos/pyhmmer

Cython bindings and Python interface to HMMER3.

Language: Cython - Size: 10.5 MB - Last synced at: 8 days ago - Pushed at: about 1 month ago - Stars: 136 - Forks: 13

tseemann/barrnap

:microscope: :leo: Bacterial ribosomal RNA predictor

Language: Perl - Size: 13.3 MB - Last synced at: 9 days ago - Pushed at: over 1 year ago - Stars: 239 - Forks: 42

chtsai0105/dbcanlight

A lightweight rewrite of run_dbcan for better multithread performance

Language: Python - Size: 310 KB - Last synced at: 9 days ago - Pushed at: about 1 month ago - Stars: 3 - Forks: 1

imjiaoyuan/papers-rep

Collection of bioinformatics analysis code and replication records for academic papers

Language: R - Size: 21.3 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 4 - Forks: 8

IBCHgenomic/proteogenomics

proteogenomics for protein analysis

Language: Rust - Size: 6.58 MB - Last synced at: 24 days ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0

PedroMTQ/mantis

A package to annotate protein sequences

Language: Python - Size: 13 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 55 - Forks: 6

michalbukowski/pfam-genomes

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

Language: Python - Size: 216 KB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 0 - Forks: 0

AaronFeller/Cinful_v2

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

Language: Jupyter Notebook - Size: 25.9 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0

goldman-gp-ebi/protein-identification-manuscript

Language: Jupyter Notebook - Size: 16.1 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 1 - Forks: 0

virtool/workflow-nuvs

A workflow for identifying novel viruses in Virtool

Language: Python - Size: 75.7 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 2 - Forks: 8

Arkadiy-Garber/MagicLamp

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

Language: HTML - Size: 36.4 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 13 - Forks: 5

arendsee/rhmmer

Simple R utilities for working with HMMER

Language: R - Size: 109 KB - Last synced at: 10 months ago - Pushed at: over 2 years ago - Stars: 16 - Forks: 2

Robaina/Pynteny

Query sequence database by HMMs arranged in predefined synteny structure

Language: Python - Size: 22.1 MB - Last synced at: 7 days ago - Pushed at: over 1 year ago - Stars: 13 - Forks: 1

ipb-jianyang/eCIS-screen

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

Language: Perl - Size: 6.7 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 2

NAL-i5K/genomics-workspace

Django website project for common sequence search tools.

Language: JavaScript - Size: 444 MB - Last synced at: about 1 year ago - Pushed at: over 2 years ago - Stars: 14 - Forks: 5

MetAnnotate/MetAnnotate

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

Language: JavaScript - Size: 12.9 MB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 2 - Forks: 0

BFL-lab/Mfannot

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

Language: Perl - Size: 1.01 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 12 - Forks: 5

russelllab/precog

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

Language: Python - Size: 8.76 MB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 3 - Forks: 1

ctSkennerton/kegg_hmm_models

Create HMMs from KEGG orthologs

Language: Makefile - Size: 5.86 KB - Last synced at: 18 days ago - Pushed at: almost 7 years ago - Stars: 2 - Forks: 1

sestaton/HMMER2GO

Annotate DNA sequences for Gene Ontology terms

Language: Perl - Size: 323 KB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 39 - Forks: 10

BioGenies/PlastoGram

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

Language: R - Size: 11.7 MB - Last synced at: 8 days ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0

Daniel-Ze/NLRextract

Find NLR hmms in protein sequences.

Language: Shell - Size: 1.55 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0

EnzoAndree/HmmPy

A Pure-Python parser of HMMER3 output

Language: Python - Size: 37.1 KB - Last synced at: over 1 year ago - Pushed at: over 8 years ago - Stars: 13 - Forks: 5

MGEScan/mgescan

A Galaxy based system for identifying retrotransposons in genome

Language: Perl - Size: 18.3 MB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 4 - Forks: 5

philippmuench/hmmvis

basic visualization of hmm profile matches to multiple fasta files

Language: Python - Size: 9.65 MB - Last synced at: about 2 years ago - Pushed at: about 8 years ago - Stars: 2 - Forks: 2

chris-rands/annotated_profile_HMMs

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

Size: 7.51 MB - Last synced at: 5 months ago - Pushed at: about 6 years ago - Stars: 0 - Forks: 0

suecharo/CPFF

Language: Python - Size: 11 MB - Last synced at: almost 2 years ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0

fungs/stockholm2cigar

Convert Stockholm alignments as output by HMMER to cigar strings

Language: Python - Size: 18.6 KB - Last synced at: about 2 years ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0