Masahiro Kanai

icon indicating a website link https://mkanai.github.io/ icon indicating an email [email protected]

icon company Massachusetts General Hospital icon location Cambridge, MA icon location Research Fellow at Massachusetts General Hospital & Broad Institute of MIT and Harvard

Results 3 issues of Masahiro Kanai

hl.Table.to_pandas() generates a dtype=string dataframe which is still experimental

1 comment

I encountered an error in an external package when I used a Hail-generated pandas data frame, which is due to an unsupported dtype [`pandas.StringDtype`](https://pandas.pydata.org/docs/reference/api/pandas.StringDtype.html#pandas.StringDtype). https://github.com/biocore-ntnu/pyranges/pull/264 Given it's still experimental in...

help wanted
triaged

Fix UnboundLocalError for 'null' variable

5 comment

Hi, I encountered the following error when using `join(how="left")` with a data frame that has a dtype of [`pandas.StringDtype`](https://pandas.pydata.org/pandas-docs/stable/reference/api/pandas.StringDtype.html#pandas.StringDtype). ``` UnboundLocalError: local variable 'null' referenced before assignment ``` I know...

Fix ref_allele_mismatch in liftover_expr for indel variants

2 comment

Hi, it seems the current `ref_allele_mismatch` doesn't work when the original reference allele has more than one bp. This PR fixes the issue. Additionally, I found there are `ref_allele_mismatch` cases...