ConDeTri specifications

Information


Unique identifier OMICS_01085
Name ConDeTri
Software type Package/Module
Interface Command line interface
Restrictions to use None
Biological technology Illumina
Operating system Unix/Linux
License Artistic License version 2.0, GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


Add your version

Documentation


Maintainer


  • person_outline Axel Kunstner <>

ConDeTri article

ConDeTri citations

 (4)
2017
PMCID: 5669919

[…] read) and the sequencing results were processed with the illumina software. to analyze small rna sequencing, the sequences were applied to go through a filtering process to obtain qualified reads. condetri [57] was used to trim or remove the reads according to the quality score. the qualified reads were then analyzed using mirdeep2 [58] to clip the 3′ adapter sequence and remove shorter reads […]

2016
PMCID: 5009661

[…] assembly using bioanalyzer dna 1000 chip (agilent technologies). one microgram sonicated dna was end-repaired, a-tailed and adaptor-ligated following the illumina trueseq dna preparation protocol., condetri [10] was implemented to trim or remove the reads according to the quality score and the cleaned and filtered nuclear reads were assembled de novo using abyss [11]. the gene functions […]

2015
PMCID: 4350182

[…] individual labels) on an illumina hiseq 2000 platform at the beijing genomics institute. a total of approximately 45 million reads per sample were trimmed for low quality bases using the program condetri with default settings (smeds and künstner 2011). the retained reads were mapped with tophat 2.0.12 (trapnell et al. 2012) against a custom modified genome (g. aculeatus v. 67, ensembl) […]

2014
PMCID: 4102588

[…] sussex 51.100n, 0.164e). total rna was provided to the beijing genomics institute (hong kong) for normalization and 90-nt paired-end illumina sequencing. paired-end reads were quality trimmed using condetri version 2 [76] and assembled de novo using the trinity transcriptome assembler with default settings (r2011-08-20, ref. [77]). we used tblastn with a dmelnv protein query to identify two […]

ConDeTri institution(s)
Department of Evolutionary Biology, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden
ConDeTri funding source(s)
Supported by the Swedish Research Council.

ConDeTri reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review ConDeTri