Hey there! I had originally used pyscenic for C. elegans data using my single cell RNA seq data. However, I want to incorporate my lab's ChIP-Seq data that hasn't been published yet. When reading the documentation I found that ChIP-Seq data was only mentioned in regards to track and BigWig files. I'm not particularly familiar with these formats. Would you perhaps have some suggestions/references on how to incorporate my lab's ChIP-Seq data into the appropriate format? I attached below the ChIP-Seq file I am working with and trying to include in my analysis.
Thank you!
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| chr |
start |
stop |
name |
score |
strand |
signalval |
pval (-log10) |
qval (-log10) |
peak |
chr |
TSS_window_start |
TSS_window_stop |
GeneID |
|
| I |
0 |
496 |
MACS2_callpeaks_on_merged_peak_1 |
123 |
. |
1.50088 |
15.22856 |
12.3319 |
282 |
I |
0 |
8909 |
WBGene00023193 |
|
| I |
10034962 |
10035283 |
MACS2_callpeaks_on_merged_peak_256 |
34 |
. |
1.52447 |
5.56146 |
3.40073 |
133 |
I |
10025174 |
10035174 |
WBGene00008665 |
|
| I |
10034962 |
10035283 |
MACS2_callpeaks_on_merged_peak_256 |
34 |
. |
1.52447 |
5.56146 |
3.40073 |
133 |
I |
10028190 |
10038190 |
WBGene00196146 |
|
| I |
10034962 |
10035283 |
MACS2_callpeaks_on_merged_peak_256 |
34 |
. |
1.52447 |
5.56146 |
3.40073 |
133 |
I |
10029816 |
10039816 |
WBGene00003564 |
|
| I |
10034962 |
10035283 |
MACS2_callpeaks_on_merged_peak_256 |
34 |
. |
1.52447 |
5.56146 |
3.40073 |
133 |
I |
10032840 |
10042840 |
WBGene00198497 |
|
| I |
10034962 |
10035283 |
MACS2_callpeaks_on_merged_peak_256 |
34 |
. |
1.52447 |
5.56146 |
3.40073 |
133 |
I |
10035223 |
10045223 |
WBGene00196679 |
|
| I |
10121940 |
10122293 |
MACS2_callpeaks_on_merged_peak_257 |
61 |
. |
1.67697 |
8.58683 |
6.15372 |
227 |
I |
10112061 |
10122061 |
WBGene00013704 |
|
| I |
10121940 |
10122293 |
MACS2_callpeaks_on_merged_peak_257 |
61 |
. |
1.67697 |
8.58683 |
6.15372 |
227 |
I |
10112159 |
10122159 |
WBGene00013704 |
|
Hey there! I had originally used pyscenic for C. elegans data using my single cell RNA seq data. However, I want to incorporate my lab's ChIP-Seq data that hasn't been published yet. When reading the documentation I found that ChIP-Seq data was only mentioned in regards to track and BigWig files. I'm not particularly familiar with these formats. Would you perhaps have some suggestions/references on how to incorporate my lab's ChIP-Seq data into the appropriate format? I attached below the ChIP-Seq file I am working with and trying to include in my analysis.
<style> </style>Thank you!