scPerturb
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sanderlab
scPerturb: A resource and a python/R tool for single-cell perturbation data
Hello, I checked [scperturb.org](http://projects.sanderlab.org/scperturb/datavzrd/scPerturb_vzrd_v1/dataset_info/index_1.html) on the 03.03. and found 58 datasets. Today, I see that datasets have been deleted and I can only see 45 datasets. The column **Number of...
Also see issue #18. - Rename function "edist" to "pairwise_...". - Provide useful error message when giving "control" keyword to the pairwise function.
"In case the perturbation status is only found in 1 cell, scPerturbR does not give you an error message about the number, but rather it complains `Error in res$p.value :...
Hello: Recently I use your dasaset and I have some questions. First, I want to use the data of paper 'Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of...
Hello, In the data of your `GSM2396860_K562_TFs__High_MOI` data of DixitRegev2016.h5ad, you give the cell barocde which is not included in cbc_gbc_dict a tag "control" in the adata.obs['perturbation'], but the true...
Using `header=None` reads the first line (which is a header) as a row in the gene annotation dataframe. This subsequently affects the dimensions of the whole dataset. https://github.com/sanderlab/scPerturb/blob/fac49ee392f6873b50fad27550e82f6507158834/dataset_processing/SrivatsanTrapnell2020.py#L77C19-L78 Currently, sciPlex3's...
Website points to old versions of Zenodo, data information table, and paper (links bioRxiv and not Nature Methods)
