diff --git a/.gitignore b/.gitignore index f6d6d95..c62a4f9 100644 --- a/.gitignore +++ b/.gitignore @@ -6,6 +6,8 @@ site/ **/*.swp **/test.* +*/._* +*/*/._* *DS_Store *RData *Rhistory diff --git a/README.md b/README.md index 50e3546..9388566 100644 --- a/README.md +++ b/README.md @@ -1,6 +1,11 @@ -![Issues](https://img.shields.io/github/issues/CCBR/CARLISLE) +# Cut And Run anaLysIS pipeLinE [CARLISLE] -# Cut And Run anaLysIS pipeLinE or CARLISLE +
+ + + [![GitHub releases](https://img.shields.io/github/release/CCBR/CARLISLE)](https://github.com/CCBR/CARLISLE/releases) [![GitHub issues](https://img.shields.io/github/issues/CCBR/CARLISLE)](https://github.com/CCBR/CARLISLE/issues) [![GitHub license](https://img.shields.io/github/license/CCBR/CARLISLE)](https://github.com/CCBR/CARLISLE/blob/master/LICENSE) + +
This snakemake pipeline is built to run on [Biowulf](https://hpc.nih.gov/). diff --git a/docs/img/._CUTandRUN_Workflow.jpeg b/docs/img/._CUTandRUN_Workflow.jpeg new file mode 100644 index 0000000..305ebb5 Binary files /dev/null and b/docs/img/._CUTandRUN_Workflow.jpeg differ diff --git a/docs/index.md b/docs/index.md index 012032e..89f470f 100644 --- a/docs/index.md +++ b/docs/index.md @@ -1 +1,3 @@ -The CARLISLE pipeline was developed in support of NIH [Dr Vassiliki Saloura's Laboratory](https://ccr.cancer.gov/staff-directory/vassiliki-saloura). It has been developed and tested solely on NIH [HPC Biowulf](https://hpc.nih.gov/). \ No newline at end of file +The CARLISLE pipeline was developed in support of NIH [Dr Vassiliki Saloura's Laboratory](https://ccr.cancer.gov/staff-directory/vassiliki-saloura) and [Dr Javed Khan's Laboratory](https://ccr.cancer.gov/staff-directory/javed-khan/lab). It has been developed and tested solely on NIH [HPC Biowulf](https://hpc.nih.gov/). + +![Image title](https://github.com/CCBR/CARLISLE/blob/dev/resources/img/CUTandRUN_Workflow.jpeg?raw=true) diff --git a/resources/cluster.yaml b/resources/cluster.yaml index 2322eff..06385f2 100644 --- a/resources/cluster.yaml +++ b/resources/cluster.yaml @@ -47,7 +47,7 @@ findMotif: threads: 6 ################################################################### rose: - mem: 10g + mem: 32g threads: 2 time: 00-06:00:00 ################################################################### diff --git a/resources/img/CUTandRUN_Workflow.jpeg b/resources/img/CUTandRUN_Workflow.jpeg new file mode 100644 index 0000000..c080358 Binary files /dev/null and b/resources/img/CUTandRUN_Workflow.jpeg differ