Daniele Capocefalo

icon indicating a website link https://research.pasteur.fr/en/member/daniele-capocefalo/ icon indicating an email [email protected]

icon company Institut Pasteur icon location Paris icon location Research Engineer @cantinilab, Institut Pasteur, Paris, FR.

Results 7 issues of Daniele Capocefalo

[BUG] Different results with the --sparse option when using GRNBoost2

Dear pySCENIC developer team, First of all, thanks for the excellent work. I am running into a conceptual issue that I cannot find a solution for. I have been trying...

bug

Adapt VIP to CellxGene Ver 0.17.0

1 comment

as per the title request, I gave tried to adapt the code to version 0.17 but the backend server directory tree dramatically changed and I have several errors. Can you...

ValueError: could not broadcast input array from shape

3 comment

Hello, I have a dataset made of unpaired RNA/ATAC seq data. I performed PCA / nearest neighbors on each modality using a standard approach and I was going for the...

bug
question

New Feature: enable cellxgene gateway to open .cxg files

1 comment

Hi, and again congratulation for this wonderful tool, it has been very helpful so far Would it be possible for you to include the reading of `.cxg`s (such as the...

enhancement

wrapper around UMAP + small top_features fix

This Pull request adds a wrapper around `scanpy` UMAP that - compute neighbours (if not present) using the MOWGLI weight matrix - compute UMAP using default `scanpy` implementation - plot...

'highly_variable' key in var of each modality should be optional and not mandatory

TF all down-regulated in a cluster after rankby group.

Hello, First, congratulations for the new version of the package, it is comprehensible, accessible, and easy to use :). I have a small question on the decoupler `ulm` and `rankby_group`...