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johnsolk/formatting_annotations.sh

Created August 29, 2016 01:53
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formatting transcriptome annotations for merging with lists of differentially expressed lists contig ID
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formatting_annotations.sh
sed 's_|_-_g' uniprot_sprot.blastx.outfmt6.sig > uniprot_sprot.blastx.outfmt6.fixed.sig
cut -f 1,2,17 uniprot_sprot.blastx.outfmt6.fixed.sig > uniprot_sprot.blastx.outfmt6.fixed.genes.sig
touch uniprot_P_ast_annotations_mansour_hits100DE.tab
for i in $(cut -f 2 P_ast_RNAseq_25pptv35ppt_top100DE.tab); do grep ${i/_/-} uniprot_sprot.blastx.outfmt6.fixed.genes.sig >> uniprot_P_ast_annotations_mansour_hits100DE.tab; done
sed 's/\-/\_/1' uniprot_P_ast_annotations_mansour_hits100DE.tab > uniprot_P_ast_annotations_mansour_hits100DE.fixed.tab
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