Parallel-META protocols

View
description
Parallel-META computational protocol

Parallel-META specifications

Information


Unique identifier OMICS_01519
Name Parallel-META
Alternative name Parallel-META 3
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS
Programming languages C, C++, R
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


Add your version

Maintainers


  • person_outline Kang Ning <>
  • person_outline Xiaoquan Su <>

Publications for Parallel-META

Parallel-META IN pipelines

 (4)
2016
PMCID: 5120256
PMID: 27876778
DOI: 10.1038/srep37376

[…] also removed. this set of high-quality reads was then used for further analysis. the sample taxonomic profile was also determined directly from the metagenome dataset using two online software, i.e. parallel-meta31 and metaphlan32, following the instructions of the two software developers., the microbial illumina reads were assembled into contigs using idba-ud33 with default parameters. genes […]

2015
PMCID: 4681832
PMID: 26734060
DOI: 10.3389/fgene.2015.00348

[…] markers or any other used in the amplicon sequencing approach., a multithreading software option to extract ribosomal marker genes from metagenomic sequences to conduct the taxonomic annotation is parallel-meta (su et al., 2014). the program collects ribosomal sequences from short reads by using a hidden markov models (hmm)-based reconstruction algorithm (de fonzo et al., 2007). then it maps […]

2012
PMCID: 3474725
PMID: 23082176
DOI: 10.1371/journal.pone.0047530

[…] the sequence data was performed through gs de novo assembler (roche), (also called newbler assembler). taxonomic analysis based on 16s rrna genes was accomplished using a recently developed software parallel-meta (http://www.computationalbioenergy.org/parallel-meta.html) and compared to the silva database [59] to investigate the relative abundance of different species present […]

2012
PMCID: 3474725
PMID: 23082176
DOI: 10.1371/journal.pone.0047530

[…] (roche), (also called newbler assembler). taxonomic analysis based on 16s rrna genes was accomplished using a recently developed software parallel-meta (http://www.computationalbioenergy.org/parallel-meta.html) and compared to the silva database [59] to investigate the relative abundance of different species present in the 13c-incorporated community., pcr products were sequenced using […]

Parallel-META institution(s)
Single-Cell Center, Shandong Key Laboratory of Energy Genetics and CAS Key Laboratory of Biofuels, Qingdao, China; Institute of Bioenergy and Bioprocess Technology, Chinese Academy of Sciences, Qingdao, Shandong, China
Parallel-META funding source(s)
Supported by grants from National Natural Science Foundation of China [61303161], Ministry of Science and Technology [2014AA21502], Open Fund of Key Laboratory of Marine Ecology and Environmental Science, Institute of Oceanology, Chinese Academy of Sciences [KLMEES201304], and Soil Microbiome Program, Chinese Academy of Sciences [XDB15040100].

Parallel-META reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review Parallel-META