diff --git a/PhyloToL-Part-1:-GF-assignment.md b/PhyloToL-Part-1:-GF-assignment.md index c51010e..ce7ea4d 100644 --- a/PhyloToL-Part-1:-GF-assignment.md +++ b/PhyloToL-Part-1:-GF-assignment.md @@ -73,17 +73,22 @@ Role of each script * Main inputs : A folder containing the assembled transcripts, a folder containing the Databases, and a folder containing the scripts. * Outputs : ReadyToGo files (AA and NTD), taxon summary, and sequence summary. -* `Optional inputs : Gcodes.txt and Conspecific.txt` -* _The Gcodes.txt is a tab separated txt file containing the genetic code of the taxa. This will most likely not be needed except for some organisms like ciliates._ +* *Optional inputs : Gcodes.txt and Conspecific.txt +* *The Gcodes.txt is a tab separated txt file containing the genetic code of the taxa. This will most likely not be needed except for some organisms like ciliates. * Example: | Taxa | Genetic code | | ----------- | --------- | | EE_uc_Me03 | Universal | -| EE_uc_Me04 | Universal | -| EE_uc_Me05 | Universal | -| EE_uc_Me06 | Universal | -| EE_uc_Me07 | Universal | +| Sr_ci_Arsp | Ciliate | +| Sr_ci_Cpol | Peritrich | +| Sr_ci_Bjap | Blepharisma | +* *The Conspecific.txt is similar and is only needed for cross plate contamination removal. +| Taxa | plate | +| ----------- | --------- | +| EE_uc_Me03 | Metatranscriptome | +| EE_uc_Me04 | Metatranscriptome | +| EE_uc_Me05 | Metatranscriptome | ### Processing genomes