AgamDao modules - Githubissues

sanjaynagi / AmpSeeker

A snakemake workflow for amplicon sequencing

https://sanjaynagi.github.io/AmpSeeker/

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AgamDao modules #38

Closed sanjaynagi closed 6 months ago

sanjaynagi commented 1 year ago

We will need to implement a species ID script for AgamDao.

This will be the first protocol-specific bit of analysis, and so we will need to think about the best way to approach this. There could simply be a series of options in the config for each protocol AmpSeeker supports.

Modules:
  AgamDao: True #anopheles
  GRC1: False #plasmodium

TODO

[x] Species ID
[x] KDR haplotypes/diplotypes
[x] ???

sanjaynagi commented 1 year ago

It is likely in the future that we will need more tailored analyses depending on the amplicon panel.

sanjaynagi commented 7 months ago

Species ID semi-complete #97

sanjaynagi commented 6 months ago

kdr complete with #102 #104