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Hi everyone,
Thanks for making this awesome software! I tried uploading a new integrated output file from pyscenic to the SCope viewer and I can see most of the data, with the exception of the gene…
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Thank you for developing such a useful tool.
I would like to ask how pySCENIC can obtain the binary result of AUCell, that is, whether regulons is active information?
Looking forward to your rep…
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Hi,
I've tried the whole pyscenic workflow several times, but every time on the step3 - 'pyscenic aucell' I would encounter this bug:
```
pyscenic aucell \
/home/aj186/10X_oJIA_v3_re-analysis/…
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Hi
Tanks for your packages for TF analysis.
I have a problem here:
I did SCENIC analysis using pySCENIC, and finally I got the a loom file after pyscenic auc analysis.
I read the loom file in R an…
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Hi,
Thank you for this brilliant package. Using the PISCES method, I had generated 7 cell-type specific networks which I have then projected onto my single cell dataset to calculate the activity fo…
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Hi,
Is there an easy way to add NES and p-value/q-value and other filters to the auc_mtx or keep as separated files ? If so, we can filter the regulons flexibly.
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This is critical especially for the SCENIC multi-runs pipelines.
Currently the output from the GRN step save the network as .tsv file. This should be compressed as a `.tsv.gz` file instead.
The cisT…
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你好,我对文章中关于SCENIC的分析过程很感兴趣,但是根据文章的描述,不太确定我的理解是否正确。
根据文章内容,分析的第一步是单独使用正常样品的raw count进行SCENIC分析,预测了每个细胞类型特异的TFs,随后依次把每个来自疾病样本的细胞类型的raw count进行SCENI分析。不知道我的理解是否准确?希望能得到答复,非常感谢!
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When trying to plot use plot_eRegulon a matplotlib error is thrown "ValueError: Unable to determine Axes to steal space for Colorbar. Either provide the *cax* argument to use as the Axes for the Color…
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Thanks for your software!
I found that the final result of pyscenic is not the same as the result of scenic. In the result of scenci, the activity of each transcription factor is either 1 or 0; in…