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Updating Chromatin Profiling Based on Issue #43 #51

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Updating Chromatin Profiling Based on Issue #43 #51

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Providing preprocessing code for chromatin profiling and adding in ad…
lhendre Feb 21, 2024
280c17b
Fixing Formatting
lhendre Feb 22, 2024
24024cc
Fixing Formatting with code
lhendre Feb 22, 2024
f3c08ae
Restructuring readme
lhendre Feb 22, 2024
10cc734
Indentation fix
lhendre Feb 22, 2024
3c137d6
Fixing formatting and instructions in readme
lhendre Feb 22, 2024
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lhendre committed Feb 22, 2024
commit 10cc73489206d198d93c90ef332410df71417623
4 changes: 3 additions & 1 deletion README.md
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Expand Up @@ -392,7 +392,9 @@ python ./create_coords.py

6. Now step into the Sei Framework and follow the steps in chromatin profile prediction and specifically run the following command below. The input-file will be the bed or fasta input file you download in step 3 which should be in the resources directory within the sei framework. For the genome, this example is geared towards hg19. You can do hg38 as well but you will need to make changes to earlier steps. Output directory is your choice.

```sh 1_sequence_prediction.sh <input-file> <genome> <output-dir> --cuda```
```
sh 1_sequence_prediction.sh <input-file> <genome> <output-dir> --cuda
```



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