Analysis Update: merge cnv files

[zzgeng]

Purpose/implementation Section

What scientific question is your analysis addressing?

Merge cnv_gatk and cnv_manta

What was your approach?

Add a R script in analyses/copy_number_consensus_call to merge analyses/copy_number_consensus_call/results/cnv-consensus.seg.gz with analyses/copy_number_consensus_call_manta/results/cnv-consensus.seg.gz

What GitHub issue does your pull request address?

#418

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

Which areas should receive a particularly close look?

merge_cnv_file.R
results/cnv-consensus_full.seg.gz

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

Results

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

Table

What is your summary of the results?

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.

Documentation Checklist

• This analysis module has a README and it is up to date.
• This analysis is recorded in the table in analyses/README.md and the entry is up to date.
• The analytical code is documented and contains comments.

[jharenza]

@zzgeng this one has conflicts which need to be resolved