User:Lindenb/Notebook/UMR915/20110223: Difference between revisions
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(New page: {{PLNB|20110222|20110224}} =Belgium= fixed problem with ensembl's tool: http://biostar.stackexchange.com/questions/5781/ensembl-variant-effect-predictor-pl-raises-an-error ./variant_eff...) |
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./variant_effect_predictor.pl --hgnc -i ~/sample1.hg19.vcf --check_ref --format vcf -o ~/sample1.predictions.txt | ./variant_effect_predictor.pl --hgnc -i ~/sample1.hg19.vcf --check_ref --format vcf -o ~/sample1.predictions.txt | ||
slow, trying | |||
cat /home/lindenb/sample1.hg19.vcf /home/lindenb/sample2.hg19.vcf | cut -d ' ' -f 1-5 | sort | uniq | ./variant_effect_predictor.pl --format vcf -o ~/variant_effect_out.txt --check_ref --hgnc | |||
=AngelHeart= | |||
refectored code to a multi-window env: http://code.google.com/p/code915/source/detail?spec=svn421&r=417 | |||
Latest revision as of 08:48, 23 February 2011
Belgium
fixed problem with ensembl's tool: http://biostar.stackexchange.com/questions/5781/ensembl-variant-effect-predictor-pl-raises-an-error
./variant_effect_predictor.pl --hgnc -i ~/sample1.hg19.vcf --check_ref --format vcf -o ~/sample1.predictions.txt
slow, trying
cat /home/lindenb/sample1.hg19.vcf /home/lindenb/sample2.hg19.vcf | cut -d ' ' -f 1-5 | sort | uniq | ./variant_effect_predictor.pl --format vcf -o ~/variant_effect_out.txt --check_ref --hgnc
AngelHeart
refectored code to a multi-window env: http://code.google.com/p/code915/source/detail?spec=svn421&r=417
