Michael Lazear

Causing errors in renaming phase, similar to what mutually recursive datatypes were doing. Easy fix

This would aid in better error reporting, especially during unification, however it's not super-high priority

Hi all, I'm currently benchmarking a variety of different proteomics search engines (Comet, MSFragger, IdentiPy, etc) for both speed & # of PSM identifications. I am struggling a bit (without...

Parsing mzIdentML is whitespace sensitive

3

Hi, Since we were discussing integration of Sage (https://github.com/compomics/searchgui/issues/334), I wrote an MzIdentML module to write results, since I wanted to play around with PeptideShaker a bit more. Unfortunately, it...

Integration with Sage

45

Hi, Is there any interest in integrating additional search engines? [Sage is an open source](https://github.com/lazear/sage) (MIT licensed) search engine that utilizes the ion-indexing approach to run fast narrow & open...

Idiomatic way to color specific residues?

3

Hi, I'm working on a basic React wrapper around the Mol* viewer. I'd like to load in a specific PDB file, and highlight specific ranges of residues on specific chains....

Search fails on mzML files?

2

**Describe the bug** Hi, no specific bug... I just can't get AlphaPept to run! I have a collection of mzML files from PXD003881 converted using ThermoRawFileParser that I am trying...

Ability to delete local cloudpath cache after upload

2

I found myself downloading a large amount of data from PRIDE (PXD004452) on a small EC2 instance (64 GB disk space) with the goal of directly transferring the data to...

Most of the querying from the language server client happens solely in terms of a source code location (e.g. `Position`, or `Range`). Currently, we're storing source-level spans, along with relevant...