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Commit e650b43f authored by Laura Cook's avatar Laura Cook
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edited snakemake command

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...@@ -42,6 +42,20 @@ Run pipeline with the following command: ...@@ -42,6 +42,20 @@ Run pipeline with the following command:
snakemake --snakefile [snakemake file] -j 6 --cluster-config envs/cluster.json --cluster "sbatch -A {cluster.account} -t {cluster.time} -p {cluster.partition} --nodes {cluster.nodes} --ntasks {cluster.ntasks} --mem {cluster.mem}" & snakemake --snakefile [snakemake file] -j 6 --cluster-config envs/cluster.json --cluster "sbatch -A {cluster.account} -t {cluster.time} -p {cluster.partition} --nodes {cluster.nodes} --ntasks {cluster.ntasks} --mem {cluster.mem}" &
``` ```
H3K27ac:
```
snakemake -j 6 --snakefile Snakefile_H3K27ac --cluster-config configs/cluster.json --cluster "sbatch -A {cluster.account} -t {cluster.time} -p {cluster.partition} --nodes {cluster.nodes} --ntasks {cluster.ntasks} --mem {cluster.mem}" &
```
H3K4me3:
```
snakemake -j 6 --snakefile Snakefile_H3K4me3 --cluster-config configs/cluster.json --cluster "sbatch -A {cluster.account} -t {cluster.time} -p {cluster.partition} --nodes {cluster.nodes} --ntasks {cluster.ntasks} --mem {cluster.mem}" &
```
Cluster configuration file: configs/cluster.json\ Cluster configuration file: configs/cluster.json\
Sample configuration file: configs/config.yaml\ Sample configuration file: configs/config.yaml\
Sample text file: configs/SSR.text\ Sample text file: configs/SSR.text\
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