-
I think a lot of taxonomic headaches might be helped if it were possible to specify that taxa are extinct in the taxonomy. For example, one might desire a tree of only extant taxa. Not sure what the c…
-
- [x] `get_uid` currently searches on one species at a time. Can we pass many names in one call for increased speed?
- [ ] rpubmed and rentrez both wrap entrez. can we pull anything from those in tax…
-
Pipeline for 18S data is currently broken, and we need to add the NCBI taxonomy regardless. In terms of pulling taxonomy in from NCBI for euks, the following levels are junky and uninformative for bi…
-
Noticing some discrepancies in the probability distributions that are reported for placed reads in sequence_taxa_summary.txt
After "walking" up the tree and summing probabilities, the top probabilit…
-
Hi Brad, AnnotationSketch is complaining about the parsed file again:
GenomeTools error: CDS feature on line 27 in file "../../mirna-django/src/scripts/tp53.gff3" has the wrong phase 0 (should be 1)
…