tomthun

I also get the `Error: Missing required datasets 'levels' and 'values'` when adding cell-level metadata whilst using `LoadH5Seurat()`. I am using the latest version of SeuratDisk_0.0.0.9020 and anndata 0.8.0. Did...

Alternativly, you can use [zellkonverter](https://bioconductor.org/packages/release/bioc/html/zellkonverter.html) to read in your anndata as a SingleCellExperiment with `ad

Does this mean that exported tof .d data to mgf are still uncalibrated? Will this feature be added at some point? Do we also have the ion mobility information in...

Also apparently numpy now requires that you specify np.int as np.int32 or np.int64. Thus an error in bruker.py at line 1985 from the alphatims package arose which could be solved...

The new Sage documentation site is great! Thanks for the great overview. Also i am eager to here if there are updates regarding this issue. ;)

Hey, sorry to bother once again. Are the changes regarding the ims_model already merged? Thanks! :)

So .d directories are now natively supported right: https://github.com/lazear/sage/issues/117#issuecomment-1928514516? I just ran some quick tests on some test data and got the following: (base) PS D:\Data\tools\SAGE> sage .\current_config.json [2024-02-09T11:03:06Z INFO...

I tried another .d dataset with the same error. Hopefully someone will soon reply at [#15](https://github.com/MannLabs/timsrust/issues/15).

Updated with the [data](https://drive.google.com/file/d/1Jj8HG1x75Gug2nEQVZ2QsYxdVAvMEu2a/view?usp=drive_link). Edit: Sorry, i had the wrong settings for the file, but should now work.

Here are some precursors extracted from the curated CustomDf.aq_reformat.tsv.ion_intensities.tsv for case number 1: And here a sniplet for case 2 (note that these precursors are NOT found in the final...