From e33642edeff21ad28a78ff3e454044e1b7e28414 Mon Sep 17 00:00:00 2001 From: "Jacob L. Steenwyk" Date: Wed, 27 Jul 2022 16:44:31 -0500 Subject: [PATCH] updated Dayna's docs in bio --- docs/about/index.rst | 9 +- ...10.renamed.fa.mafft.clipkit.orthosnap.4.fa | 118 +++++++++--------- 2 files changed, 64 insertions(+), 63 deletions(-) diff --git a/docs/about/index.rst b/docs/about/index.rst index 8d5ca6c5..b2cf36b0 100644 --- a/docs/about/index.rst +++ b/docs/about/index.rst @@ -116,10 +116,11 @@ tree of life, and the evolution of human pregnancy. Find out more information at |DCGoltz| -Dayna is a Vanderbilt University graduate and studied Health Policy. Her interests and -studies span fields related to medicine, global health, health disparities, and programming. -She is currently planning to attend medical school beginning in 2022 and hopes to help -shape the field of medicine and reduce health disparities using an interdisciplinary approach. +Dayna is a medical student at University of South Florida Morsani College of Medicine. She is +also a Vanderbilt University graduate, where she studied Health Policy. Here interests and studies +span fields related to medicine, global health, health disparities, programming, and the +intersection of technology and medicine. She hopes to shape the field of medicine and reduce +health disparities using an interdisciplinary approach. .. |DCGoltz| image:: ../_static/img/DCGoltz.jpg :width: 35% diff --git a/tests/samples/OG0000010.renamed.fa.mafft.clipkit.orthosnap.4.fa b/tests/samples/OG0000010.renamed.fa.mafft.clipkit.orthosnap.4.fa index 4111a72e..d432845e 100644 --- a/tests/samples/OG0000010.renamed.fa.mafft.clipkit.orthosnap.4.fa +++ b/tests/samples/OG0000010.renamed.fa.mafft.clipkit.orthosnap.4.fa @@ -1,100 +1,100 @@ ->Aspergillus_oerlinghausenensis_CBS139183|A_oerling_CBS139183_05774-RA-duplicate -M----------------------------------------------------------- +>Aspergillus_oerlinghausenensis_CBS139183|A_oerling_CBS139183_09150-RA +MGSMHEAG---------------------------------------------------- ------------------------------------------------------------ ------------------------------------------------------------ +----------------------SRPAADAD---MDTDR------VHPEAV---------- +-----SNSERDFEKQDSKPEYRDAFGDEEYAEVKYKTLSWWQCGFLMVAETVSLGILSLP +AVV---AALGLVPAIILLVALGLMSTYTGYTIGQFKWAYPHIHSMGDAGEVIMGRFGREL +FGTGQLLLVVFIMASHILTFTVAMNSITDHGTCSIVFGVVGLVISFVLCLPRTLAKVSFL +SVASFISVFSAVLIVMIAVGVQRPWHGSVNATVDTSLYKAFLAVCNIVFSFCRLFLHFIS +FMDRTDRTAGHVAFFGFMAELRNPRDYPKSLFLLQGIDTCLYIVAAVVIYCYAGDDVTSP +ALGSASTIVKKVAYGIALPTIIIGGVVNGHVACKYIYVRMWR-HSDRMHKRDLVATGSWV +LIGLATWIVAWIIAEAIPVFNNLLSLVASLFASWFTYGFSALFWLYLNKGRFFSTPMKTA +LTILNVVIMGIACCICGLGLYVSGKALHDDPSSASF------------------------ ------------------------------------------------------------ ------------------------------------------------------------ ------------------------------------------------------------ -FGIGQLLFLIFLMASHILTFTVVFNTITNHGTCTIVFGVVGLVVSFIGALPRTMGKVYWM -SMASCISIVTATVVTMIAIGVQAPDHVHVDATTEVSFQDAFLAVTNIIFAY--------- ---------IAHVAFFGFISEMHDPRDFPKSLTMLQVVDTSLYIVTAMVIYRYAGPDVASP -ALSSAGPLMKKVAYGLAIPTVVIAGVVFGHVACKYIYVRIFR-GSAHMHQNSFLAIGSWV -AIALGVWVVAWVIAESIPVFNELLSLISSLFGSWFSYGLPAIFWLVMNKGRWFSTRSKIC -LTIVNFLILAFACALCGMGLYVSGKSIHDSSSKASW------------------------ +---------------------------SCANNA--------------------------- ------------------------------------------------------------ ------------------------------------------------------------ ------------------------------------------------------------ ----------------------------TCKNNAT-------------------------- +>Aspergillus_fumigatus_Af293|EAL84262.1 +MGSMHEAG---------------------------------------------------- ------------------------------------------------------------ ------------------------------------------------------------ -----------------------------------------------------------TT ->Aspergillus_fumigatus_Af293|EAL85095.2-duplicate -M---------------------MLWLK--------------------------------- +----------------------SRPAAGAD---MDTDR------VHPEAV---------- +-----SDNERDFEKQDSKPEYQDAFGDEEYAEVKYKTLSWC------------------- ------------------------------------------------------------ ------------------------------------------------------------ ---------------------RRNMLMGRRQMTRLEM------------------------ --------------------------KNAERSNIV-------SCRGVMVAENISLGILSLS -SAV---ATLGIVPAVILLLGLSAISWYTGYIMGQFKLRFPQIHSMGDAGELLMGRFGREL -FGIGQLLFLIFLMASHILTFSVVFNTITNHGTCTIVFGVVGLVVSFIGALPRTMGKVYWM -SMASCISIVTATVVTMIAIGVQAPDHVHVNVTTKVSFQDAFLAVTNIIFAY--------- ---------IAHVAFFGFISEMHDPRDFPKSLTMLQVVDTSLYIVTAMVIYRYAGPDVASP -ALSSAGPLMKKVAYGLAIPTVVIAGVVFGHVACKYIYVRIFR-GSAHMHQNSFLAIGSWV -AIALGVWVVAWVIAESIPVFNELLSLISSLFGSWFSYGLPAIFWLVMNKGRWFSTRSKIC -LTIVNFFILAFACALCGMGLYVSGKSIHDSSSKASW------------------------ +-------VFSAVLIVMIAVGVQRPWHGGLNATVDTNLYKAFLAVCNIVFSFCRLFLHFSS +FMDRTNKTAGHVAFFGFMAELRNPRDYPKSLFLLQGIDTCLYIIAAVVIYCYAGDDVTSP +ALGSASTIVKKVAYGIALPTIIIGGVVNGHVACKYIYVRMWR-HSDRMHKRDLVATGSWV +LIGLATWIVAWIIAEAIPVFNNLLSLVREVLVV-----ICTMIW-----ERVLIAPSVTA +FRLF------------PLALFVATR----DPRSIG------------------------- ------------------------------------------------------------ ------------------------------------------------------------ ------------------------------------------------------------ ----------------------------TCKNNAT-------------------------- ------------------------------------------------------------ ------------------------------------------------------------ -----------------------------------------------------------TT ->Aspergillus_fischeri_NRRL181|XP_001261692.1 -M----------------------------------------------------------- ------------------------------------------------------------ ------------------------------------------------------------ --------------------------AVSRD---LEA----------PAVVNDP------- ----TAYDATVEKKEYADGTPANDPFGNEECGEVKYRVMSWWQCGTLMVAENISLGILSLP -SAV---ATLGIVPAVILLLGLSAISWYTGYIMGQFKLRFPQVHSMGDAGELLMGRFGREL -FGIGQLLFLIFLMASHILTFTVVFNTITNHGTCTIVFGVVGLVVSFIGALPRTMGKVYWM -SMASCISIVTATVVTMIAIGVQAPEHVHVDATTEVSFQDAFLAVTNIIFAY--------- ---------IAHVAFFGFISEMHDPRDFPKSLTMLQVVDTSLYIVTAMVIYRYAGPDVASP -ALSSAGPVMKKVAYGLAIPTVVIAGVVFGHVACKYIYVRIFR-GSAHMHQNSFLAIGSWV -AIALSVWVVAWVIAESIPVFNELLSLISSLFGSWFSYGLPAIFWLVMNKGRWFSTRSKIC -LTIVNFLILAFACALCGMGLYVSGKSIHDSSSKASW------------------------ +>Aspergillus_fischeri_NRRL181|XP_001267441.1 +MGSMLEAG---------------------------------------------------- ------------------------------------------------------------ ------------------------------------------------------------ +----------------------SRPAADAE---MDTDR------VHPEAV---------- +-----SDGERDFEKQDSKPEYQDAFGDEEYAEVKYKTLSWCH------GCRDSVTGYSLP +ASG---GGLGPCP---------------------FKWAYPHIHSMGDAGEVIMGRFGREL +FGTGQLLLVVFIMASHILTFTVAMNSITDHGTCSIVFGVVGLVISFVLCLPRTLAKVSFL +SVASFISVFSAVLIVMIAVGVQRPWHGSVNATVDTSLYKAFLAVCNIVFSF--------- +--------SGHVAFFGFMAELKNPRDYPKSLFLLQGIDTCLYIVAAVVIYCYAGDDVTSP +ALGSASIVVKKVAYGIALPTIIIGGVVNGHVACKYIYVRMWR-HSDRMHKRDLVATGSWV +LIGLATWIVAWIIAEAIPVFNNLLSLVASLFASWFTYGFSALFWLYLNKGRFFSTPMKTA +LTILNVVIMGIACCICGLGLYVSGKALHDDPSSASF------------------------ ------------------------------------------------------------ ----------------------------TCKNNAT-------------------------- ------------------------------------------------------------ ------------------------------------------------------------ +---------------------------SCANNA--------------------------- ------------------------------------------------------------ ->Aspergillus_niger_CBS_513.88|XP_001401336.1 -M----------------------------------------------------------- ------------------------------------------------------------ ------------------------------------------------------------ -------------------------APTTRD---LEA----------LTVHHDS------- --DIMADDLAEKKVSANESPPENDPFGNEECGEVKYRVMKWWHCGILMIAENISLGILSLP -SAV---ATLGIVPSIFLILGLSGISWYTGYVIGQFKLRYPQVHSMGDAGEILFGRIGREI -LFFGQLLFCIFLMSSHILTFTVLFNTITGHGTCTIVFGVVGLVVSFIGALPRTMGKVYWM -SLASCTSITVATIVTMVAIAMQAPDHVQVDITTHPSFSTAFLSVTNIVFAF--------- ---------IAHVAFFGFASEMEDPRDFPKSLAMLQVTDTTMYIVTAMVIYRYAGPDVASP -ALSSAGPLMSKVAYGLAIPTVIIAGVVFGHVASKYIYVRVWR-GSPQMHTNSLAAVGSWV -AIALGVWVIAWIIAESIPVFNDLLSLISSLFGSWFSYGLPAMFWLVMNRGQYTASPRKIF -LTIVNLVIFGIACAICGLGLYVSGKAIHDSSSSASW------------------------ +>Aspergillus_niger_CBS_513.88|XP_001400898.1 +M--AHPTG---------------------------------------------------- ------------------------------------------------------------ ------------------------------------------------------------ +----------------------DKVDSHLN---VQTGQFFQDGREEPYLH---------- +------DAEEKQDEKKGSPIYNDTFGDEEYAEVKYKVLSWWQCGFLMVAETVSLGILSLP +AVV---ATLGLAPAIVLIVGLGLLATYTGYVIGQFRWRYPHVQNLADAGEILFGSIGREI +FGIGQLLLVIFIMASHLLTFSVAMNTITEHGTCSIVFGVVGLVICFLLGLPRTSANVSYL +SVASFISVFSAVMIVMIAVGVERPYKGTLSATVDTSLYEAFLAVCNIVFSF--------- +--------SGHVAFFGFMSELKDHREYPKALCLLQGLDTILYLVTSVVIYIYAGPNVTSP +ALGSASELVGKVAYGIALPTIIIGGVVNGHVACKYVYVRIFR-HGDRMHSRDLLATGSWV +GIALGLWIIAWIIAEAIPVFNDLLSLIASLFASWSTFGFSGMFWLYLNKDRLFSSPRKIA +LTIFNVIIIGIAACICGLGLYVSGRSLHDDANGSSF------------------------ ------------------------------------------------------------ ----------------------------TCANNAST------------------------- ------------------------------------------------------------ ------------------------------------------------------------ +---------------------------SCASNA--------------------------- ------------------------------------------------------------ ->Aspergillus_awamori_IFM_58123|GCB19008.1 -M----------------------------------------------------------- ------------------------------------------------------------ ------------------------------------------------------------ -------------------------APTTRD---LEA----------LAVHHDS------- --DIMADDLAEKKVSANESPPENDPFGNEECGEVKYRVMKWWHCGILMIAENISLGILSLP -SAV---ATLGIVPSIFLILGLSGISWYTGYVIGQFKLRYPQVHSMGDAGEILFGRIGREI -LFFGQLLFCIFLMSSHILTFTVLFNTITGHGTCTIVFGVVGLVVSFIGALPRTMGKVYWM -SLASCTSITVATIVTMVAIAVQAPDHVQVDITTHPSFSTAFLSVTNIVFAF--------- ---------IAHVAFFGFASEMEDPRDFPKSLAMLQVTDTTMYIVTAMVIYRYAGPDVASP -ALSSAGPLMSKVAYGLAIPTVIIAGVVFGHVASKYIYVRVWR-GSPQMHTNSLAAVGSWV -AIALGVWVIAWIIAESIPVFNDLLSLISSLFGSWFSYGLPAMFWLVMNRGQYTASPRKIF -LTIVNLVIFGIACAICGLGLYVSGKAIHDSSSSASW------------------------ +>Aspergillus_awamori_IFM_58123|GCB19337.1 +M--AHPTG---------------------------------------------------- ------------------------------------------------------------ ------------------------------------------------------------ +----------------------DKVDSHLN---VQTGQFFQDGREEPYLH---------- +------DAEEKQDEKKGSPIYNDTFGDEEYAEVKYKVLSWWQCGFLMVAETVSLGILSLP +AVV---ATLGLAPAIVLIVGLGLLATYTGYVIGQFRWRYPHVQNLADAGEILFGSIGREI +FGIGQLLLVIFIMASHLLTFSVAMNTITEHGTCSIVFGVVGLVICFLLGLPRTSANVSYL +SVASFISVFSAVMIVMIAVGVERPYKGTLSATVDTSLYEAFLAVCNIVFSF--------- +--------SGHVAFFGFMSELKDHREYPKALCLLQGLDTILYLVTSVVIYIYAGPNVTSP +ALGSASELVGKVAYGIALPTIIIGGVVNGHVACKYVYVRIFR-HGDRMHSRDLLATGSWV +GIALGLWIIAWIIAEAIPVFNDLLSLIASLFASWSTFGFSGMFWLYLNKDRLFSSPRKIA +LTFFNVIIIGIAACICGLGLYVSGRSLHDDANGSSF------------------------ ------------------------------------------------------------ ----------------------------TCANNAST------------------------- +------------------------------------------------------------ +------------------------------------------------------------ +---------------------------SCASNA--------------------------- ------------------------------------------------------------ ------------------------------------------------------------ ------------------------------------------------------------