AB Uppercase - mendessoares/BuddySuite GitHub Wiki

--uppercase, -uc

Description

Convert all sequences to uppercase characters (if supported by the output format).

Example

Input file: Panx.phy

 4 100
Ate-PanxβG  mvavatdlkellvikgksridtfsdqynrifivrllmvctiimgfswytdsiscivpethnld---gdfvsaacwiqgvyvfkeltsrvdk---vayfgm
Ate-PanxβD  masqinsikslltikpksrnddytdqfhrifmvkmsmvaslllglnwvkdtitciipgtagis---gdyvhqacwiqgfyiyrdlqhtpgk---fglfgi
Hvu-PanxβI  miglesdlrriltvtlkarhddltdqlnrlimvklflvcclimgiswftdsincivpaintve---tafvsqacwiqgfyvfkplmtrfd----vaffgi
Che-PanxβF  m-vvvrslkdilalkikarhdspcdqfsrlfmtkmfliaavimgfdyfsdriscihpkktdlt---kefihaacwisgfyvykemrdrpre---sgyygi

 2 86
Mle-Panxα9  ----MLDILSKF------------KGVTPFKGITIDDGWDQLNRSFMFVLLVVMGTTVTVR-QYTGSVISC--------DGFKKFG
Mle-Panxα6  -M--LLEILANF------------KGATPFKEIVLDDKWDQINRCYMFLLCVIFGTVVTFR-QYTGGIIAC--------DGLTKFS

Usage example

$: alb Panx.phy -uc

Output

 4 100
Ate-PanxβG  MVAVATDLKELLVIKGKSRIDTFSDQYNRIFIVRLLMVCTIIMGFSWYTDSISCIVPETHNLD---GDFVSAACWIQGVYVFKELTSRVDK---VAYFGM
Ate-PanxβD  MASQINSIKSLLTIKPKSRNDDYTDQFHRIFMVKMSMVASLLLGLNWVKDTITCIIPGTAGIS---GDYVHQACWIQGFYIYRDLQHTPGK---FGLFGI
Hvu-PanxβI  MIGLESDLRRILTVTLKARHDDLTDQLNRLIMVKLFLVCCLIMGISWFTDSINCIVPAINTVE---TAFVSQACWIQGFYVFKPLMTRFD----VAFFGI
Che-PanxβF  M-VVVRSLKDILALKIKARHDSPCDQFSRLFMTKMFLIAAVIMGFDYFSDRISCIHPKKTDLT---KEFIHAACWISGFYVYKEMRDRPRE---SGYYGI

 2 86
Mle-Panxα9  ----MLDILSKF------------KGVTPFKGITIDDGWDQLNRSFMFVLLVVMGTTVTVR-QYTGSVISC--------DGFKKFG
Mle-Panxα6  -M--LLEILANF------------KGATPFKEIVLDDKWDQINRCYMFLLCVIFGTVVTFR-QYTGGIIAC--------DGLTKFS