aertslab SCENICprotocol issues

aertslab / SCENICprotocol

A scalable SCENIC workflow for single-cell gene regulatory network analysis

GNU General Public License v3.0

139 stars 62 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Inquiry on Comparative Analysis of Regulon Activity Using pySCENIC in different groups.

#83 chenfengQAQ opened 3 months ago
2
nextflow Segmentation fault preprocess_visualize_project_scanpy.py cluster

#82 vagabond12 opened 5 months ago
0
Will regulon outputs be biased by a large proportion of homogeneous cells in my dataset?

#81 katsturgess opened 9 months ago
0
Kernal dead

#80 Chrisdoan9 opened 10 months ago
0
TypeError: void() takes exactly 1 positional argument (0 given)

#79 clg12 opened 1 year ago
1
Cannot load pbmc10k_scenic_integrated-output.loom following the Jupyter notebook tutorial

#78 kangjiajinlong opened 1 year ago
0
KeyError: 'RegulonsAUC' when running PBMC10k_SCENIC-protocol-CLI

#77 geenaildefonso opened 1 year ago
0
After running the three Docker steps what next??

#76 faizjab opened 1 year ago
1
How long for pyscenic ctx to run?

#75 igrisch opened 1 year ago
2
download all files in https://resources.aertslab.org/cistarget/

#74 GeneVector5 opened 1 year ago
0
can I use nextflow output reg.csv and adj.csv file?

#73 daweibushen opened 1 year ago
0
The rss results are different between R and python

#72 ZivTQ opened 1 year ago
1
AUCell - AttributeError: 'Series' object has no attribute 'iteritems'

#71 shrutikhare-git opened 1 year ago
1
Installation says python3.6 but pandas1.3.5 requires python3.7+

#70 Jiayi-Zheng opened 1 year ago
0
how to apply SCENIC to another species(zebrafish) except for human,mouse and fly?

#69 rlawltn9718 opened 1 year ago
1
Bump certifi from 2019.9.11 to 2022.12.7

#68 dependabot[bot] opened 1 year ago
0
Problem to install VSN_Pipelines

#67 StevenTur opened 1 year ago
0
Bump joblib from 0.14.0 to 1.2.0

#66 dependabot[bot] opened 2 years ago
0
Protocol

#65 StevenTur closed 2 years ago
1
Metadata for aucell output

#64 LinearParadox opened 2 years ago
0
Bump nbconvert from 5.6.0 to 6.5.1

#63 dependabot[bot] opened 2 years ago
0
Memory error while running on CLI

#62 Erfan1369 opened 2 years ago
0
Bump nbconvert from 5.6.0 to 6.3.0

#61 dependabot[bot] closed 2 years ago
1
Bump pyarrow from 0.15.0 to 0.15.1

#60 dependabot[bot] opened 2 years ago
0
Bump mistune from 0.8.4 to 2.0.3

#59 dependabot[bot] opened 2 years ago
0
Help with Analysis for Multiple samples, Counts normalization?

#58 AlinaKurjan opened 2 years ago
1
Memory required for running pyscenic

#57 sidrahmaryam-cyber opened 2 years ago
2
Bump distributed from 1.28.1 to 2021.10.0

#56 dependabot[bot] opened 2 years ago
0
Bump numpy from 1.17.2 to 1.22.0

#55 dependabot[bot] opened 2 years ago
0
nextflow pipeline error: Signatures dataframe is empty

#54 Zifeng-L opened 2 years ago
0
Question about the input of `pyscenic ctx`

#53 xuzhougeng opened 2 years ago
1
Would it be better to use raw/normalized/batch-effect-removed input count matrix?

#52 hongyaz closed 2 years ago
2
Not able to change the pyscenic version to 0.10.4 in the nextflow pipeline --pyscenic_container

#51 ammarsabir15 opened 2 years ago
0
Bump ipython from 7.8.0 to 7.16.3

#50 dependabot[bot] opened 2 years ago
0
Bump dask from 1.0.0 to 2021.10.0

#49 dependabot[bot] opened 2 years ago
0
How to switch the revision of nextflow and jumpover the preprocess steps in nf?

#48 Zifeng-L opened 2 years ago
0
ValueError: Intersection of gene_names and tf_names is empty.

#47 agarmill closed 3 years ago
1
Bump urllib3 from 1.25.6 to 1.26.5

#46 dependabot[bot] opened 3 years ago
0
Bump urllib3 from 1.25.6 to 1.25.8

#45 dependabot[bot] closed 3 years ago
1
Nextflow broken pipe - GRNinference never starts

#44 Theob0t opened 3 years ago
4
ImportError: cannot import name 'plot_scatter' from 'scanpy.plotting._tools.scatterplots'

#43 nobie666 opened 3 years ago
6
OSError: Unable to open file (file signature not found)

#42 HerpelinckT closed 3 years ago
2
No module named 'sklearn.manifold.t_sne'

#41 f6v closed 3 years ago
2
Bump pygments from 2.4.2 to 2.7.4

#40 dependabot[bot] opened 3 years ago
0
Bump pyyaml from 5.1.2 to 5.4

#39 dependabot[bot] opened 3 years ago
0
Bump jinja2 from 2.10.3 to 2.11.3

#38 dependabot[bot] opened 3 years ago
0
Error: buffer source array is read-only

#37 weishwu opened 3 years ago
2
Bump bleach from 3.1.4 to 3.3.0

#36 dependabot[bot] opened 3 years ago
0
Can the number of cells exceed 65536?

#35 XiaoyuLi-smu closed 3 years ago
3
AttributeError: module 'numba' has no attribute 'jitclass'

#34 Lee0498 closed 3 years ago
1