Protocols

ParsInsert specifications

Information


Unique identifier OMICS_21460
Name ParsInsert
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C++
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.04
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline David Knox

ParsInsert citations

 (2)
call_split

DNA extraction protocols cause differences in 16S rRNA amplicon sequencing efficiency but not in community profile composition or structure

2014
PMCID: 4263514
PMID: 25257543
DOI: 10.1002/mbo3.216
call_split See protocol

[…] align frequently represented co-amplified ant 18S rRNA gene sequences and were also excluded from further analyses. The remaining sequences were then inserted into the Greengenes reference tree using ParsInsert (http://parsinsert.sourceforge.net/). Rarefaction curves were generated using mothur version 1.33.3 (Schloss et al. ). The OTU table was rarefied to a depth of 44,000 for further analyses. […]

call_split

Investigating the Impact of Storage Conditions on Microbial Community Composition in Soil Samples

2013
PLoS One
PMCID: 3729949
PMID: 23936206
DOI: 10.1371/journal.pone.0070460
call_split See protocol

[…] clustered de novo. We required that all OTUs have a count of at least two reads across all samples. OTUs that were not represented in the Greengenes reference tree were inserted into that tree using ParsInsert (http://parsinsert.sourceforge.net) as implemented in QIIME so that phylogenetic measures of beta diversity could be used. Evenness was calculated using the equitability metric defined in Q […]

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