SnpEff
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http://snpeff.sourceforge.net/download.html
wget http://sourceforge.net/projects/snpeff/files/snpEff_latest_core.zip unzip snpEff_latest_core.zip java -jar snpEff.jar databases | grep "Homo_sapiens" GRCh37.70 Homo_sapiens http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh37.70.zip GRCh37.71 Homo_sapiens http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh37.71.zip GRCh37.72 Homo_sapiens http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh37.72.zip GRCh37.73 Homo_sapiens http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh37.73.zip GRCh37.74 Homo_sapiens http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh37.74.zip GRCh37.75 Homo_sapiens http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh37.75.zip GRCh37.GTEX Homo_sapiens, Gencode 12, GTEX project http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh37.GTEX.zip GRCh38 Homo_sapiens ENSEMBL_BFMPP_26_104 http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_ENSEMBL_BFMPP_26_104.zip GRCh38.76 Homo_sapiens http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh38.76.zip GRCh38.77 Homo_sapiens http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh38.77.zip GRCh38.78 Homo_sapiens http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh38.78.zip GRCh38.79 Homo_sapiens http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh38.79.zip GRCh38.81 Homo_sapiens http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_GRCh38.81.zip hg19 Homo_sapiens (USCS) http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_hg19.zip hg19kg Homo_sapiens (UCSC KnownGenes) http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_hg19kg.zip hg38 Homo_sapiens (USCS) http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_hg38.zip hg38kg Homo_sapiens (UCSC KnownGenes) http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_hg38kg.zip testHg19ChrM Homo_sapiens (UCSC) http://downloads.sourceforge.net/project/snpeff/databases/v4_1/snpEff_v4_1_testHg19ChrM.zip java -jar snpEff.jar download hg19