Software

CCavallo_Thesis Appendix_NGS Bioinformatics pipeline 16S.Rmd

Monash University
Cathy Cavallo (Aggregated by)
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ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rfr_id=info%3Asid%2FANDS&rft_id=info:doi10.26180/5ea7d81ecd137&rft.title=CCavallo_Thesis Appendix_NGS Bioinformatics pipeline 16S.Rmd&rft.identifier=https://doi.org/10.26180/5ea7d81ecd137&rft.publisher=Monash University&rft.description=Bioinformatic workflow.This code will allow the user to clean and organise their DNA sample library and then calculate measures of taxon abundance for analysis. Important steps include: * Removing + samples with less than 100 target reads + Non-target sequences + Specific samples (e.g. those that did not meet thresholds for inclusion, like CT) * Producing group totals for higher taxonomic levels * Calculating the frequency of occurrence (FOO) and relative read abundance (RRA) of items in the dataset &rft.creator=Cathy Cavallo&rft.date=2020&rft_rights=CC-BY-4.0&rft_subject=bioinformatics analyses&rft_subject=Ecology&rft_subject=Bioinformatics&rft_subject=Behavioural Ecology&rft.type=Computer Program&rft.language=English Access the software
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CC-BY-4.0

Full description

Bioinformatic workflow.
This code will allow the user to clean and organise their DNA sample library and then calculate measures of taxon abundance for analysis. Important steps include:
* Removing
+ samples with less than 100 target reads
+ Non-target sequences
+ Specific samples (e.g. those that did not meet thresholds for inclusion, like CT)

* Producing group totals for higher taxonomic levels

* Calculating the frequency of occurrence (FOO) and relative read abundance (RRA) of items in the dataset

Issued: 2020-04-28

Created: 2020-04-28

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Subjects
Behavioural Ecology | Bioinformatics | Ecology | bioinformatics analyses |

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Identifiers
ACN 633 798 857