Tim

icon location San Francisco icon location Building the world's most modern, open source, software library for engineering organisms.

Results 42 comments of Tim

Genbank parser doesn't handle feature attributes with colliding names.

adding @Koeng101 to the issue.

PDBx Parser

https://pdb101.rcsb.org/learn/guide-to-understanding-pdb-data/beginner%E2%80%99s-guide-to-pdb-structures-and-the-pdbx-mmcif-format

PDBx Parser

@carreter where is this on your roadmap for after this semester? By chance met @ethanholz at a conference the other week who joined our discord, wrote this in zig, and...

Implement LinearFold for prediction of RNA secondary structure

I have some opinions on it. Essentially what's made implementing linear fold difficult is the source code doesn't really break down the algo into composable parts. If I remember correctly...

Create top-level `types.go` to define types shared across packages

I agree with @cachemoi regarding package names like `type` or `util`. The subpackages poly has been split into have been very carefully made to avoid kitchen sink-like packages that make...

slow5 doesn't detect newline

@Koeng101 was this ever fixed?

Failed to parse Saccharomyces cerevisiae S288C chromosome IX

Should be fixed in #394 @Koeng101?

Improvements to issue/PR labeling/management

> Overall, lgtm, just a few comments! > > > Close stale issues after 1 month of inactivity > > I don't like this. The problem is often still there,...

Improvements to issue/PR labeling/management

Holy quotes batman.

Improvements to issue/PR labeling/management

> > Maybe label them stale or something to let other people know they wouldn't be stepping on toes if they picked it up or assigned themselves. > > Yep,...