What inspired this Wish List Request? Please describe the current issue that needs improvement, or the new problem to be solved that is not easy or possible right now.
In JMP Genomics, there use to be an option to import SAM/BAM files and then get variant calls from these files. Since the discontinuation of JMP Genomics, some capabilities were ported to JMP Pro. This is not one them
Please describe the new or improved feature or solution you would like to see.
- Allow importing of SAM/BAM files and create variant calls from these files.
- Specification is listed in this link
- I envision an option within JMP Pro under File>Open that allows importing these files and then creating a variant calls like JMP Genomics use to be able to do.
What would the value be to you and/or other users if this new feature is provided? Any information on ease of use, time saved, new feature value would be appreciated. If this is a feature that you have available through other software solutions, please describe that software tool.
Allows one to import a common file format in the Genomic field to get genetic data into JMP Pro for analysis
Is this an external customer request? If so, please provide the customer account name and key points of contact and users that made the request.
Yes, USDA-ARS
Is there a competitive software package that has this feature or solution that we should be aware of? Please provide any information you can on competitive software, including links to websites, demos, or examples.
R/Bioconductor, SAM Tools
Will this impact a renewal, expansion, or adoption at a customer, and does this put an account at risk if we do not address this? Please provide reasonable detail and description of the account specific issue.
The customer is a US Government customer and has a 50 year license so even if they do not renew, they still have a license that lasts a long time. It does help migrate JMP Genomics customers to JMP Pro.
As a side note, I do not think we should do this since there are other free tools that can create the variant calls and save as text files or VCF files. We are not in the business of bioinformatics. Submitting this on the customers behalf.
