• Stars
    star
    1
  • Language
    C
  • Created over 1 year ago
  • Updated 22 days ago

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

HMMER (version 3) related projects

More Repositories

1

emg-viral-pipeline

VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
Python
116
star
2

genomes-pipeline

MGnify genome analysis pipeline
Python
89
star
3

EukCC

Tool to estimate genome quality of microbial eukaryotes
Python
29
star
4

emg-toolkit

MGnify API toolkit
Python
21
star
5

ebi-metagenomics-cwl

This repository contains the CWL description of the EBI Metagenomics pipeline
Common Workflow Language
21
star
6

pipeline-v5

This repository contains all CWL descriptions of the MGnify pipeline version 5.0.
HTML
21
star
7

genome_uploader

Python script to upload bins and MAGs to ENA (European Nucleotide Archive)
Python
20
star
8

MGnifyR

R package for searching, downloading and analysis of EBI MGnify metagenomics data
R
19
star
9

mobilome-annotation-pipeline

Python
16
star
10

examples

Microbiome Informatics - API and service usage examples
Jupyter Notebook
12
star
11

ebi-metagenomics

Automatically exported from code.google.com/p/ebi-metagenomics
Java
11
star
12

emgapi

MGnify RESTful API
Python
10
star
13

notebooks

MGnify documentation and Jupyter Lab notebooks to support downstream analysis of MGnify data (EMBL-EBI's metagenomics platform)
Jupyter Notebook
10
star
14

kegg-pathways-completeness-tool

Python
6
star
15

workflow-is-cwl

This repository contains CWL descriptions of the various tools which will allow you to build workflows for the annotation of transcripts
HTML
6
star
16

mgnify-web

Parent repo for MGnify's (EMBL-EBI's metagenomics platform) API and web client. Designed for local development.
Python
5
star
17

orchestra

A job orchestration system to rule them all
Python
4
star
18

ebi-metagenomics-client

This repos contains the MGnify web client
TypeScript
4
star
19

amplicon-pipeline

Nextflow
4
star
20

motus_pipeline

Raw reads mOTUs and taxonomic classification pipeline
HTML
3
star
21

CWL-assembly

Common Workflow Language
3
star
22

MGnifam

Python
3
star
23

fasta-reader-py

FASTA file reader.
Python
3
star
24

EMG-docs

This repository contains the documentation for the EBI Metagenomics resource
3
star
25

nf-modules

Microbiome Informatics NF modules and sufworkflows
Nextflow
3
star
26

mgnify-biata-2020

2
star
27

CRISPRCasFinder-CWL

Implementation of CRIPSPRCasFinder tool in CWL
Common Workflow Language
2
star
28

fetch_tool

Tool which allows you to fetch RAW read files from the European Nucleotide Archive (ENA)
Python
2
star
29

mgnify-sourmash-component

A web component that let you select FastA or FastQ sequence files and creates sketches (KmerMinHash signatures) using Sourmash.
TypeScript
2
star
30

ebi-metagenomics-webkit

NPM package for a Backbone-JS API to consume the European Bioinformatic Institute's MGnify API for metagenomic data, in addition to a widget library to visualise the data
HTML
2
star
31

holofood-course

ReadTheDocs/Sphinx documentation source for the "Organisation and utilisation of hologenomic datasets" Holofood course, 2022
HTML
2
star
32

hmmer-py-old

HMMER Python interface.
Python
2
star
33

mgnify-ebi-2020

1
star
34

hmmer-reader-py

HMMER file reader.
Python
1
star
35

fraggenescan

FragGene Scan fork
C
1
star
36

genome-search

Microservice API for searching fragments against indexed genomes, using COBS. Provides the "search by gene" feature on MGnify's MAG catalogues.
Python
1
star
37

mgnify-ebi-2021

Jupyter Notebook
1
star
38

green-socket

Abstraction for non-blocking sockets in C.
C
1
star
39

fasta-reader

FASTA reader for C.
C
1
star
40

ebi-metagenomics-stats

Python
1
star
41

HoloFoodR

R interface for HoloFood resource
R
1
star
42

mgnifams-site

JavaScript
1
star
43

holofood-database

HoloFood is a project investigating sustainable food production through hologenomics. This Django app is the data portal where samples and other datasets from the project are made publicly available.
Python
1
star
44

ena-api-handler

Python
1
star
45

biome_prediction

Python module to predict GOLD biomes from free text field, can also be used as a command line tool.
Python
1
star
46

mgbinrefinder

Bin refinment tool
Python
1
star
47

mgnifams

Python
1
star