User: mollysil

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mollysil0
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Posts by mollysil

<prev • 21 results • page 1 of 3 • next >
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Comment: C: Use R for Mantel Test for Correlation of Diversity v. Soil Properties
... Thank you!! I figured it would be something obvious like that. ...
written 13 days ago by mollysil0
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Use R for Mantel Test for Correlation of Diversity v. Soil Properties
... I am using R Studio (vegan package) to run mantel tests to see if the microbial species diversity in my samples was correlated with specific soil properties (such as, nitrogen or soil pH). (This is hopefully a very simplistic answer for someone more familiar with the R vegan package than myself). ...
diversity R mantel test soil written 18 days ago by mollysil0 • updated 18 days ago by genomax40k
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Comment: C: Change OTU names to taxon names
... I modified my question to better explain the table I wish to make. Let me know if you have any ideas for this. You code didn't make the table I envisioned because I didn't explain my question correctly. ...
written 8 weeks ago by mollysil0
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Comment: C: Change OTU names to taxon names
... Is the example better explained now? ...
written 8 weeks ago by mollysil0
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Comment: C: Change OTU names to taxon names
... Thanks. I edited my post. ...
written 8 weeks ago by mollysil0
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Change OTU names to taxon names
... I have two .csv tables: Table 1 depicts the abundance of each OTU of interest (columns) found at each sampling site (rows). The column headers are the arbitrary OTU names (ex: OTU_1) and rows are labeled by site (ex: AF141 stands for American Farm sampled in 2014, replicate #1) ...
otu taxon written 8 weeks ago by mollysil0
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Comment: C: How to retrieve rows from OTU table
... Magical! Thanks so much!!! ...
written 11 weeks ago by mollysil0
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How to retrieve rows from OTU table
... I have a text file that is a list of OTU names in the first column, with the occurrence in each treatment in the following columns (totaling 34 columns). I put a sample of the table below. There are ~3000 OTUs total in this file (therefore, ~3000 rows). CM2_9 0 0 0 AF141_14 22 25 23 ...
otu rows written 11 weeks ago by mollysil0 • updated 11 weeks ago by 5heikki7.0k
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Comment: C: FASTA Headers Not Useful from Database Download
... I cannot get Biopython. But thank you anyway! ...
written 13 months ago by mollysil0
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Comment: C: FASTA Headers Not Useful from Database Download
... It's actually the first part of the sequence ID that represents the NCBI sequence accession number. So how would I go about matching up the first part of the headers with the NCBI database taxon information? I am able to remove the latter part of the header so it looks like: > gb|AB046938 ...
written 13 months ago by mollysil0

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