Differences
This shows you the differences between two versions of the page.
Both sides previous revision Previous revision | Last revision Both sides next revision | ||
buildingaphylogeny [2013/09/12 21:02] anniearchambault |
buildingaphylogeny [2013/09/12 21:12] anniearchambault |
||
---|---|---|---|
Line 58: | Line 58: | ||
sudo ./prank -d=/Users/anniearchambault/Documents/learning_teaching/Alignment_and_phylogeny_building/Protea_Faurea_ITS_trnL_75seq.fasta \\ | sudo ./prank -d=/Users/anniearchambault/Documents/learning_teaching/Alignment_and_phylogeny_building/Protea_Faurea_ITS_trnL_75seq.fasta \\ | ||
For the Fungal_ITS_ref_sequence_nl.fasta_.txt, rename sequences with shorter names by typing this command: \\ | For the Fungal_ITS_ref_sequence_nl.fasta_.txt, rename sequences with shorter names by typing this command: \\ | ||
- | cut Fungal_ITS_ref_sequence_nl.fasta_.txt -f 1-3 -d ' ' > Fungal_ITS_ref_sequence_nl_trim.fasta | + | cut -f 1-3 -d ' ' Fungal_ITS_ref_sequence_nl.fasta_.txt > Fungal_ITS_ref_sequence_nl_trim.fasta |
The output file will be named output.best.fas . Open it in any sequence viewer. My favorite one is [[http://www.genious.com|Geneious]], but it is commercial. JalView is free. | The output file will be named output.best.fas . Open it in any sequence viewer. My favorite one is [[http://www.genious.com|Geneious]], but it is commercial. JalView is free. |