Hi all,
I’m a PhD student, just at the begin with mothur analysis… I got a problem when I have to align sequences usign “align.seqs” comand.
I downloaded the database of fungi from UNITE website, but I didn’t find the “aligned file”.
I tried to process align.seqs comand with all file found in the UNITE directory dowloaded, as:
UNITEv6_sh_97.fasta
UNITEv6_sh_99.fasta
UNITEv6_sh_dynamic.fasta
But none is working…please can you help me?
Any help will be very apreciate
Really thank for your recommendation!! We have also primers to amplify the ITS2 region, but as we are at the begin of fungi analysis, I’m trying to test different software package in order to understand if I will be able to work with fungi
Really thank for your recommendation!! We have also primers to amplify the ITS2 region, but as we are at the begin of fungi analysis, I’m trying to test different software package in order to understand if I will be able to work with fungi
Really thank for your recommendation!! We have also primers to amplify the ITS2 region, but as we are at the begin of fungi analysis, I’m trying to test different software package in order to understand if I will be able to work with fungi
It works! Now I have more than one logfile!
just last question… I’m trying to analyse 16S using this procedure but mothur stop all time at the command classify.seqs
#Chimera.vsearch procedure:
vsearch --derep_fulllength
vsearch --cluster_fast
vsearch --sortbysize
vsearch --uchime_denovo
*Using fasta.file, obtained by vsearch --uchime_denovo, I try to run the classify.seqs command.
#classify.seqs(fasta=current, reference=\SILVA_128_mothur\silva.seed_v128.align, taxonomy=SILVA_128_mothur\SEED\silva.seed_v128.tax, output=simple)
*The command is not working, because mothur stop and close the run.
In the logfile there is no explanation about why mothur is closing, and I don’t understand why…