fbf1a3a1fac7fdd4ad7bd169e966fe28c9a01f7f hiram Tue Aug 18 09:08:22 2020 -0700 adding canFam5 definitions refs #25917 diff --git src/hg/makeDb/trackDb/trackDb.chainNet.mammal.ra src/hg/makeDb/trackDb/trackDb.chainNet.mammal.ra index 5b2499e..218a038 100644 --- src/hg/makeDb/trackDb/trackDb.chainNet.mammal.ra +++ src/hg/makeDb/trackDb/trackDb.chainNet.mammal.ra @@ -1,540 +1,595 @@ ################################################################ # macEug2 - Wallaby - Macropus eugenii - mammal - mammal - 3610 ################################################################ track chainNetMacEug2 release alpha compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 200.3 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 91,-170,-39,-185,-170,100,-50,-39,-39,-50,100,-170,-185,-39,-170,91 matrixHeader A, C, G, T otherDb macEug2 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetMacEug2Viewchain release alpha shortLabel Chain view chain visibility pack parent chainNetMacEug2 spectrum on track chainMacEug2 release alpha parent chainNetMacEug2Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain macEug2 html chainNet track chainNetMacEug2Viewnet release alpha shortLabel Net view net visibility dense parent chainNetMacEug2 track netMacEug2 release alpha parent chainNetMacEug2Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign macEug2 chainMacEug2 html chainNet ################################################################ # sarHar1 - Tasmanian devil - Sarcophilus harrisii - mammal - mammal - 3590 ################################################################ track chainNetSarHar1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 215.30 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 94,-188,7,-204,-188,100,-112,7,7,-112,100,-188,-204,7,-188,94 matrixHeader A, C, G, T otherDb sarHar1 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetSarHar1Viewchain shortLabel Chain view chain visibility pack parent chainNetSarHar1 spectrum on track chainSarHar1 parent chainNetSarHar1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain sarHar1 html chainNet track chainNetSarHar1Viewnet shortLabel Net view net visibility dense parent chainNetSarHar1 track netSarHar1 parent chainNetSarHar1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign sarHar1 chainSarHar1 html chainNet ################################################################ # dasNov3 - Armadillo - Dasypus novemcinctus - mammal - xenarthra - 3459 ################################################################ track chainNetDasNov3 release alpha compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 240.3 color 0,0,0 altColor 255,255,0 type bed 3 sortOrder view=+ matrix 16 90,-93,-26,-108,-93,100,-69,-26,-26,-69,100,-93,-108,-26,-93,90 matrixHeader A, C, G, T otherDb dasNov3 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetDasNov3Viewchain release alpha shortLabel Chain view chain visibility pack parent chainNetDasNov3 spectrum on track chainDasNov3 release alpha parent chainNetDasNov3Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain dasNov3 html chainNet track chainNetDasNov3Viewnet release alpha shortLabel Net view net visibility dense parent chainNetDasNov3 track netDasNov3 release alpha parent chainNetDasNov3Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign dasNov3 chainDasNov3 html chainNet track chainNetRegenCho1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 370.3 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91 matrixHeader A, C, G, T otherDb regenCho1 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetRegenCho1Viewchain shortLabel Chain view chain visibility pack parent chainNetRegenCho1 spectrum on track chainRegenCho1 parent chainNetRegenCho1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain regenCho1 html chainNet track chainNetRegenCho1Viewnet shortLabel Net view net visibility full parent chainNetRegenCho1 track netRegenCho1 parent chainNetRegenCho1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign regenCho1 chainRegenCho1 html chainNet track chainNetCriGriChoV1 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 370.3 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91 matrixHeader A, C, G, T otherDb criGriChoV1 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetCriGriChoV1Viewchain shortLabel Chain view chain visibility pack parent chainNetCriGriChoV1 spectrum on track chainCriGriChoV1 parent chainNetCriGriChoV1Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain criGriChoV1 html chainNet track chainNetCriGriChoV1Viewnet shortLabel Net view net visibility full parent chainNetCriGriChoV1 track netCriGriChoV1 parent chainNetCriGriChoV1Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign criGriChoV1 chainCriGriChoV1 html chainNet track chainNetCriGriChoV2 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 370.3 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91 matrixHeader A, C, G, T otherDb criGriChoV2 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetCriGriChoV2Viewchain shortLabel Chain view chain visibility pack parent chainNetCriGriChoV2 spectrum on track chainCriGriChoV2 parent chainNetCriGriChoV2Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain criGriChoV2 html chainNet track chainNetCriGriChoV2Viewnet shortLabel Net view net visibility full parent chainNetCriGriChoV2 track netCriGriChoV2 parent chainNetCriGriChoV2Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign criGriChoV2 chainCriGriChoV2 html chainNet ################################################################ +# canFam5 - dog - Canis lupus familiaris - mammal - 9615 +# Great dane 'Zoey' +################################################################ +track chainNetCanFam5 +compositeTrack on +shortLabel $o_Organism Chain/Net +longLabel $o_Organism ($o_date), Chain and Net Alignments +subGroup1 view Views chain=Chain net=Net +dragAndDrop subTracks +visibility hide +group compGeno +noInherit on +priority 240 +color 0,0,0 +altColor 100,50,0 +type bed 3 +sortOrder view=+ +matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91 +matrixHeader A, C, G, T +otherDb canFam5 +chainMinScore 3000 +chainLinearGap medium +spectrum on +html chainNet + + track chainNetCanFam5Viewchain + shortLabel Chain + view chain + visibility pack + parent chainNetCanFam5 + spectrum on + + track chainCanFam5 + parent chainNetCanFam5Viewchain + subGroups view=chain + shortLabel $o_Organism Chain + longLabel $o_Organism ($o_date) Chained Alignments + type chain canFam5 + html chainNet + + track chainNetCanFam5Viewnet + shortLabel Net + view net + visibility full + parent chainNetCanFam5 + + track netCanFam5 + parent chainNetCanFam5Viewnet + subGroups view=net + shortLabel $o_Organism Net + longLabel $o_Organism ($o_date) Alignment Net + type netAlign canFam5 chainCanFam5 + html chainNet + +################################################################ # canFam4 - dog - Canis lupus familiaris - mammal - 9615 # German shepard 'Mischka' ################################################################ track chainNetCanFam4 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 240 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91 matrixHeader A, C, G, T otherDb canFam4 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetCanFam4Viewchain shortLabel Chain view chain visibility pack parent chainNetCanFam4 spectrum on track chainCanFam4 parent chainNetCanFam4Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain canFam4 html chainNet track chainNetCanFam4Viewnet shortLabel Net view net visibility full parent chainNetCanFam4 track netCanFam4 parent chainNetCanFam4Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign canFam4 chainCanFam4 html chainNet ################################################################ # canFam3 - dog 'Tasha' - Canis lupus familiaris - mammal - 9615 ################################################################ track chainNetCanFam3 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 240 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91 matrixHeader A, C, G, T otherDb canFam3 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetCanFam3Viewchain shortLabel Chain view chain visibility pack parent chainNetCanFam3 spectrum on track chainCanFam3 parent chainNetCanFam3Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain canFam3 html chainNet track chainNetCanFam3Viewnet shortLabel Net view net visibility full parent chainNetCanFam3 track netCanFam3 parent chainNetCanFam3Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign canFam3 chainCanFam3 html chainNet ################################################################ # canFam2 - dog 'Tasha' - Canis lupus familiaris - mammal - 9615 ################################################################ track chainNetCanFam2 compositeTrack on shortLabel $o_Organism Chain/Net longLabel $o_Organism ($o_date), Chain and Net Alignments subGroup1 view Views chain=Chain net=Net dragAndDrop subTracks visibility hide group compGeno noInherit on priority 240 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91 matrixHeader A, C, G, T otherDb canFam2 chainMinScore 3000 chainLinearGap medium spectrum on html chainNet track chainNetCanFam2Viewchain shortLabel Chain view chain visibility pack parent chainNetCanFam2 spectrum on track chainCanFam2 parent chainNetCanFam2Viewchain subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain canFam2 html chainNet track chainNetCanFam2Viewnet shortLabel Net view net visibility full parent chainNetCanFam2 track netCanFam2 parent chainNetCanFam2Viewnet subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign canFam2 chainCanFam2 html chainNet ################################################################ # canFamPoodle1 - dog - Canis lupus familiaris - mammal - 9615 # Venter's poodle 'Shadow' ################################################################ track chainNetPoodle compositeTrack on shortLabel Poodle Chain/Net longLabel Poodle Chain and Net Alignments subGroup1 view Views chain=Chains net=Nets dragAndDrop subTracks visibility hide group compGeno noInherit on priority 500 color 0,0,0 altColor 100,50,0 type bed 3 sortOrder view=+ track chainNetPoodleViewchain shortLabel Chains view chain visibility pack parent chainNetPoodle spectrum on track chainCanFamPoodle1 parent chainNetPoodleViewchain off subGroups view=chain shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments color 0,0,0 altColor 100,50,0 matrix 16 91,-90,-25,-100,-90,100,-100,-25,-25,-100,100,-90,-100,-25,-90,91 matrixHeader A, C, G, T type chain canFamPoodle1 otherDb canFamPoodle1 track chainNetPoodleViewnet shortLabel Nets view net visibility full parent chainNetPoodle track netCanFamPoodle1 parent chainNetPoodleViewnet off subGroups view=net shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign canFamPoodle1 chainCanFamPoodle1 otherDb canFamPoodle1