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quinlan-lab / pathoscore

pathoscore evaluates variant pathogenicity tools and scores.
MIT License
21 stars 8 forks source link

README and make.sh for M-CAP, added if statement for grabbing CADD set #22

Closed jimhavrilla closed 7 years ago

brentp commented 7 years ago

is it a VCF? if so, please name it accordingly.

jimhavrilla commented 7 years ago

No, it was the only way tabix would work correctly. It's a 5-field txt file, like MPC or CADD

Jim Havrilla PhD Candidate in Human Genetics, University of Utah Accelerated BS/MS in Biomedical Engineering, Drexel University '12, Concentration: Bioinformatics "Memory, comprehension, communication, motivation"

On Mon, Aug 28, 2017 at 12:53 PM, Brent Pedersen notifications@github.com wrote:

is it a VCF? if so, please name it accordingly.

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/quinlan-lab/pathoscore/pull/22#issuecomment-325444592, or mute the thread https://github.com/notifications/unsubscribe-auth/AGQ8BA0wCxNWQBQnoYkWIUvMWF55o-aGks5scwyPgaJpZM4PE6MZ .

jimhavrilla commented 7 years ago

Also could you check the GERP pull request?

Jim Havrilla PhD Candidate in Human Genetics, University of Utah Accelerated BS/MS in Biomedical Engineering, Drexel University '12, Concentration: Bioinformatics "Memory, comprehension, communication, motivation"

On Mon, Aug 28, 2017 at 12:53 PM, Jim Havrilla semjaavria@gmail.com wrote:

No, it was the only way tabix would work correctly. It's a 5-field txt file, like MPC or CADD

Jim Havrilla PhD Candidate in Human Genetics, University of Utah Accelerated BS/MS in Biomedical Engineering, Drexel University '12, Concentration: Bioinformatics "Memory, comprehension, communication, motivation"

On Mon, Aug 28, 2017 at 12:53 PM, Brent Pedersen <notifications@github.com

wrote:

is it a VCF? if so, please name it accordingly.

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/quinlan-lab/pathoscore/pull/22#issuecomment-325444592, or mute the thread https://github.com/notifications/unsubscribe-auth/AGQ8BA0wCxNWQBQnoYkWIUvMWF55o-aGks5scwyPgaJpZM4PE6MZ .

jimhavrilla commented 7 years ago

I fixed the -p vcf line and made it -b 2 -e 2