MetaSUB_CAP

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They have removed the previous link and updated to v3 https://github.com/biobakery/MetaPhlAn/wiki/MetaPhlAn-3.0

Chandrima-04

Issue with running the CAP (missing finch or other issue?)

1

Hi, I wanted to run the CAP on a test PE read dataset. Following the instructions listed on the [GitHub page](https://github.com/MetaSUB/MetaSUB_CAP#running-with-docker), I executed the following commands in order to set...

SiWolf

Ensemble profiling approach using MetaMeta

2

Hi David, I think it would be interesting to use an ensemble approach to decrease false positives in the samples. I think [MetaMeta](https://github.com/pirovc/metameta) could be useful.

andrewmaltezthomas

Currently just samples from first chunk of reads, could be biased due to flowcells

dcdanko

Make a standalone rule that writes the number of reads to a file. This will free any normalizing rules from dependence on read_stats

dcdanko

Add CRASS

1

CRASS Finds CRISPR spacers and inserts https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3664793/ https://github.com/ctskennerton/Crass

dcdanko

Add/Evaluate GOTTCHA. Formerly part of v.1.0.0 but GOTTCHA seems to have some software bugs that require more time and care to address. See #12

dcdanko

Add melonnpan

1

Add/Evaluate MelonnPan for the CAP https://bitbucket.org/biobakery/biobakery/wiki/melonnpan

dcdanko