These are chat archives for dereneaton/ipyrad
snps.phycontaining 64 samples . This was my command line call:
tetrad -s test.snps.phy -n test -b 100 -c 16 --MPI. I believe tetrad completed without errors (nothing in the screen output said there was an error) but I don't see the same output files as in the example in docs here. Particularly
.full.treare missing. I have the following files:
test.boots test.cons test.input.h5 test.nhx test.output.h5 test.quartets.txt test.tet.json test.tree
Hi everyone. I have some basics questions about the parameters.
I would like you help me.
In the parameter 17 filter_min_trim_len, the sequences with a minor size a 35 (for example) will be descarted? And
In the parameter 10 Phred_Qscore_offset can I chose a phred 28? How I do this? Because 33 is a 20 phred and 43 is a 30 phred