PAUDA pipeline

PAUDA specifications


Unique identifier OMICS_08010
Alternative name Protein Alignment Using a DNA Aligner
Software type Package/Module
Interface Command line interface
Restrictions to use None
Biological technology Illumina
Operating system Unix/Linux, Mac OS
Programming languages Java
Computer skills Advanced
Stability Stable
Maintained Yes



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Publication for Protein Alignment Using a DNA Aligner

PAUDA IN pipelines

PMCID: 4746707
PMID: 25919703
DOI: 10.1111/mpp.12273

[…] were specific for d. septosporum, and not other organisms associated with pine needles, the top taxonomic hit for each of 1% of all reads was determined using the metagenomics search program pauda (huson and xie, 2014). no more than 0.2% of all reads from the early stage sample mapped to other species of fungi, and this rate was even lower in later stages, probably because of the whole […]

PMCID: 4033843
PMID: 24904650
DOI: 10.3389/fgene.2014.00157

[…] been developed which may prove to be useful quality control tools. these include the blobology tools (kumar et al., 2013) to investigate the gc and genome of sequencing libraries. in addition the pauda (huson and xie, 2014) tool can be used to rapidly identify the taxonomic id of reads in much the same way as blast can be used to classify contigs., in terms of hardware infrastructure, […]

PAUDA institution(s)
Singapore Centre on Environmental Life Sciences Engineering, School of Biological Sciences, Nanyang Technological University, Singapore, Center for Bioinformatics, University of Tübingen, Tübingen, Germany and Life Sciences Institute, National University of Singapore, Singapore
PAUDA funding source(s)
National Research Foundation and Ministry of Education Singapore under its Research Centre of Excellence Programme

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