add updated genelistreference.tct and results

[kgaonkar6]

Purpose/implementation Section

Add updates to reference gene list. We are removing the curated TF and predicted TF from TRANSFAC to only use TF gene list from cell paper of transcription factors in humans.

What scientific question is your analysis addressing?

Filtered fusion list from steps 01-04. Only update is the reference/genelistreference.txt file and results folder.

What was your approach?

Remove genes with cureated_TF and predicted_TF in file column in originical genelistreference.txt

What GitHub issue does your pull request address?

#39 and #10

Directions for reviewers. Tell potential reviewers what kind of feedback you are soliciting.

Which areas should receive a particularly close look?

Is there anything that you want to discuss further?

Is the analysis in a mature enough form that the resulting figure(s) and/or table(s) are ready for review?

Yes this table is ready for oncoprint:
results/PutativeDriverFusion.tsv

What types of results are included (e.g., table, figure)?

table

What is your summary of the results?

3213 Fusions are identified as putative oncogenic fusions for PBTA . These fusions are annotated as oncogenic fused genes or recurrent fusions ( not multi-fused and not found in multiple histologies).

Reproducibility Checklist

• The dependencies required to run the code in this pull request have been added to the project Dockerfile.
• This analysis has been added to continuous integration.

[jaclyn-taroni]

👍