Miao Sun

Request to add feature to generate consensus sequences

3

Hi, I would like to request more features for `pxconsq` function in **phyx** : 1. have a flag (or option) that user can choose preferred symbol for gap? Like "-"...

index of `change_id_to_name_fasta.py` out of range

2

Hi I think the line 14 in `change_id_to_name_fasta.py` has to be: **`idn[spls[0]] = spls[1]`** rather than: `idn[spls[3]] = spls[4]` Since [the tutorial](https://fephyfofum.github.io/PyPHLAWD/scripts/) said: > change_id_to_name_fasta.py This will allow you to...

Gymnosperms higher orders seems out of date, "Cupressales" is missing and all the taxa belong to "Cupressales" was assigned to "Pinales" See below: ``` library("taxonlookup") ho unique(ho$order[ho$group=="Gymnosperms"]) [1] "Cycadales" "Ginkgoales"...

Phyx errot: double free or corruption (!prev)

3

Hi, We have been using phyx to subset a bunch of smaller trees, using`pxrmt` with `-f`, no matter use `-c` or not, the function giving errors like below: ``` pxrmt...

Error in get_inat_obs for taxa having large number of records

2

Following code gives error ```` test