cjain7
commented
3 years ago Please see #64 (may be a those pairs correspond to distant genomes) You could run AAI and confirm
Open spencer411 opened 3 years ago
cjain7
commented
3 years ago Please see #64 (may be a those pairs correspond to distant genomes) You could run AAI and confirm
I am analyzing a dataset that consists of uncharacterized streptococcus isolates downloaded from NCBI. Fastani executes fine with no error message, yet my output file is missing a large number of comparisons. See my heatmap attached. Initially, I was running this via SLURM, but looking at past similar issues I have tried running it directly from the command line, I have also tried re-installing it, yet I keep getting the same results. Note that it was installed using conda and I have double-checked that both miniconda 3 and all base packages are up to date as well. Note that I have also screened this dataset for contamination with checkm, and I am not analyzing any genomes with more than 5% contamination. I have analyzed a couple of other datasets with no issues. Any assertation as to what might be going on is greatly appreciated.