Using MitImpact3.1.0 database in Annovar
0
0
Entering edit mode
2.3 years ago
Merlin • 0

How can I use the MitImpact3.1.0 database in Annovar? It seems to be that only MitImpact2 was available in Annovar. I downloaded the MitImpact3.1.0 database manually, and tried the following code to build the database but failed;

(base) Server:~/software/annovar$ annotate_variation.pl -buildver hg38 MitImpact_db_3.1.0.txt humandb/

NOTICE: The --geneanno operation is set to ON by default
NOTICE: Output files are written to MitImpact_db_3.1.0.txt.variant_function, MitImpact_db_3.1.0.txt.exonic_variant_function
NOTICE: Reading gene annotation from humandb/hg38_refGene.txt ... Done with 88819 transcripts (including 21511 without coding sequence annotation) for 28307 unique genes
NOTICE: Variants with invalid input format are written to MitImpact_db_3.1.0.txt.invalid_input
Annovar MitImpact3 • 697 views
ADD COMMENT
0
Entering edit mode

Since previous title ("Postdoc") had no relation to the question I changed the title of the post to reflect the content.

ADD REPLY

Login before adding your answer.

Traffic: 3344 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6