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Katzlab 2024-01-04 14:00:25 -05:00
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Home.md

@ -7,25 +7,25 @@ PhyloToL is…
## Introduction
## PhyloToL Part I = determining gene families
### Overview
###Set up
###The hook - for determining gene families
###Processing transcriptomes
###Processing genomes with CDs
###Starting at different points in the process (Folder structure)
###Appendices
Overview
Set up
The hook - for determining gene families
Processing transcriptomes
Processing genomes with CDs
Starting at different points in the process (Folder structure)
Appendices
##PhyloToL Part 2 = generating MSAs and gene trees
###Overview of the process
### Producing MSA - curated or not (PreG - Guidance)
### Filtering on GC3 content
### Making Trees
### Contamination loop - additional curation
Overview of the process
Producing MSA - curated or not (PreG - Guidance)
Filtering on GC3 content
Making Trees
Contamination loop - additional curation
## Databases
### PTL6-Hook
### 1000 taxa ready to go’s
### 1000 taxa curated for 500 GFs
PTL6-Hook
1000 taxa ready to go’s
1000 taxa curated for 500 GFs
## Utilities