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Hi I am running as follows:
python ideepe.py --posi=RBM20_peaks_positive.fa --nega=HNRNPL-human.fa --model_type=CNN --model_file=RBM20.model.pkl --train=True
===> Using GPU
Namespace(batch_size=10…
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During network reduction, a function has a he form "() & (X)", which causes problems downstream.
Here is an example:
```
N=500
K=2
p=sm.RandomBooleanNetworks.get_criticality_p_Kauffman(K)[0] …
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I tried
```R
show_motif(ml_net, '2,2[IV.A]')
```
(this is the 4-motif without edges) and got
```
Fehler in `vertex.attributes
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I noticed that when propagating fixed nodes, the resulting rules are not necessarily in the "sum of all possible prime implicants" form (Blake canonical form). So after
`primes = PyBoolNet.FileExch…
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**Hello Tim and team,**
**As always thanks for your excellent work. I am in the process of using Signac to analyze some scATAC data and found the ClosestFeature function gave the following error:**
…
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Merged stable motif histories currently display as a list of indices. We should add the option to display the corresponding motifs in a reordered list, rather than just each motif's index in the motif…
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**Version:** 0.8.3.3 beta
**Steps to Reproduce:**
1. Host a new world
2. ask a friend to try to connect
**Expected behavior:**
The friend should join and will would play in happiness
**Ac…
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Hi Mette,
I run a code like this TOBIAS BINDetect --motifs /Users/xiaohan/Desktop/diffbind/jaspar.txt --signals /Users/xiaohan/Desktop/diffbind/atacorrect_test/ZR_corrected.bw /Users/xiaohan/Desktop/…
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Can someone please explain how to run a motif?
os : ubuntu 16.04
version : sst 7.X
Firstly i am new to using SST i downloaded sstcore, elements
now i am looking at givien motifs and py files.
…
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Hi,
I am trying to use a custom bed file as input to predict the activity score in each genomic loci using the model trained and tested in the manuscript.
I was able to download the trained mode…