93bfdd4cd73c04200bc783407316195cdbad7d5c jcasper Thu May 21 23:13:13 2020 -0700 Adding southern sea otter (enhLutNer1) to mm10 and hg38 placental mammals chain/net, refs #21152 diff --git src/hg/makeDb/trackDb/human/chainNetPlacental.ra src/hg/makeDb/trackDb/human/chainNetPlacental.ra index 58d2562..537a92e 100644 --- src/hg/makeDb/trackDb/human/chainNetPlacental.ra +++ src/hg/makeDb/trackDb/human/chainNetPlacental.ra @@ -1,21 +1,21 @@ track placentalChainNet compositeTrack on shortLabel Placental Chain/Net longLabel Non-primate Placental Mammal Genomes, Chain and Net Alignments subGroup1 view Views chain=Chains net=Nets -subGroup2 species Species s000=Guinea_pig s001=Guinea_pig s002=Chinchilla s003=Chinese_hamster s004=Chinese_hamster_CHOv1 s0045=Chinese_hamster_CHOv2 s005a=Kangaroo_rat s005b=Beaver s006=Malayan_flying_lemur s007=Naked_mole-rat s008=Naked_mole-rat s0081=Damara_mole-rat s009=Lesser_Egyptian_jerboa s010=Golden_hamster s011=Prairie_vole s012=Mouse s013=Mouse s014=Mouse s015=Mouse s016=Mouse s017=Upper_Galilee_mountains_blind_mole_rat s018=Pika s019=Pika s020=Brush-tailed_rat s021=Rabbit s022=Rabbit s023=Prairie_deer_mouse s024=Rat s025=Rat s026=Rat s027=Rat s028=Rat s029=Squirrel s030=Squirrel s031=Tree_shrew s032=Chinese_tree_shrew s033=Panda s034a=Dog s034b=Dog s035=Dog s036=Dog s037=Dog s037b=Cat s038=Cat s039=Cat s040=Cat s041=Cat s042=Weddell_seal s043=Ferret s044=Hawaiian_monk_seal s045=Pacific_walrus s046=Amur_tiger s047=Polar_bear s048=Minke_whale s049=Bison s050=Wild_yak s051a=Cow s051b=Cow s052=Cow s053=Cow s054=Cow s055=Cow s056=Cow s057=Cow s058=Cow s059=Cow s060=Water_buffalo s061=Bactrian_camel s062=Domestic_goat s063=Yangtze_river_dolphin s064=Killer_whale s065a=Sheep s065b=Sheep s065c=Sheep s067=Tibetan_antelope s068=Sperm_whale s069=Pig s070=Pig s071=Pig s072=Pig s073=Dolphin s074=Dolphin s075=Alpaca s076=Alpaca s077=Straw_colored_fruit_bat s078=Big_brown_bat s079=Indian_false_vampire s080=Brandt's_myotis_(bat) s081=David's_myotis_(bat) s082=Microbat s083=Microbat s084=Black_flying-fox s085=Parnell's_mustached_bat s086=Megabat s087=Greater_horseshoe_bat s088=Egyptian_rousette s089=Star-nosed_mole s090=Hedgehog s091=Hedgehog s092=Chinese_pangolin s093=Shrew s094=Shrew s095=White_rhinoceros s096a=Horse s096b=Horse s096c=Horse s098=Przewalski_horse s099=Sloth s100=Armadillo s101=Armadillo s102=Armadillo s103=Cape_golden_mole s104=Tenrec s105=Tenrec s106=Cape_elephant_shrew s107=Elephant s108=Elephant s109=Elephant s110=Aardvark s111=Rock_hyrax s112=Manatee +subGroup2 species Species s000=Guinea_pig s001=Guinea_pig s002=Chinchilla s003=Chinese_hamster s004=Chinese_hamster_CHOv1 s0045=Chinese_hamster_CHOv2 s005a=Kangaroo_rat s005b=Beaver s006=Malayan_flying_lemur s007=Naked_mole-rat s008=Naked_mole-rat s0081=Damara_mole-rat s009=Lesser_Egyptian_jerboa s010=Golden_hamster s011=Prairie_vole s012=Mouse s013=Mouse s014=Mouse s015=Mouse s016=Mouse s017=Upper_Galilee_mountains_blind_mole_rat s018=Pika s019=Pika s020=Brush-tailed_rat s021=Rabbit s022=Rabbit s023=Prairie_deer_mouse s024=Rat s025=Rat s026=Rat s027=Rat s028=Rat s029=Squirrel s030=Squirrel s031=Tree_shrew s032=Chinese_tree_shrew s033=Panda s034a=Dog s034b=Dog s035=Dog s036=Dog s037=Dog s037b=Cat s038=Cat s039=Cat s040=Cat s041=Cat s042=Weddell_seal s043=Ferret s043a=Southern_sea_otter s044=Hawaiian_monk_seal s045=Pacific_walrus s046=Amur_tiger s047=Polar_bear s048=Minke_whale s049=Bison s050=Wild_yak s051a=Cow s051b=Cow s052=Cow s053=Cow s054=Cow s055=Cow s056=Cow s057=Cow s058=Cow s059=Cow s060=Water_buffalo s061=Bactrian_camel s062=Domestic_goat s063=Yangtze_river_dolphin s064=Killer_whale s065a=Sheep s065b=Sheep s065c=Sheep s067=Tibetan_antelope s068=Sperm_whale s069=Pig s070=Pig s071=Pig s072=Pig s073=Dolphin s074=Dolphin s075=Alpaca s076=Alpaca s077=Straw_colored_fruit_bat s078=Big_brown_bat s079=Indian_false_vampire s080=Brandt's_myotis_(bat) s081=David's_myotis_(bat) s082=Microbat s083=Microbat s084=Black_flying-fox s085=Parnell's_mustached_bat s086=Megabat s087=Greater_horseshoe_bat s088=Egyptian_rousette s089=Star-nosed_mole s090=Hedgehog s091=Hedgehog s092=Chinese_pangolin s093=Shrew s094=Shrew s095=White_rhinoceros s096a=Horse s096b=Horse s096c=Horse s098=Przewalski_horse s099=Sloth s100=Armadillo s101=Armadillo s102=Armadillo s103=Cape_golden_mole s104=Tenrec s105=Tenrec s106=Cape_elephant_shrew s107=Elephant s108=Elephant s109=Elephant s110=Aardvark s111=Rock_hyrax s112=Manatee subGroup3 clade Clade c00=Euarchontoglires c01=Carnivora c02=Cetartiodactyla c03=Chiroptera c04=Laurasiatheria c05=Perissodactyla c06=Xenarthra c07=Afrotheria dragAndDrop subTracks visibility hide group compGeno noInherit on color 0,0,0 altColor 255,255,0 type bed 3 chainLinearGap loose chainMinScore 5000 dimensions dimensionX=clade dimensionY=species sortOrder species=+ view=+ clade=+ configurable on html placentalChainNet priority 8 @@ -415,30 +415,38 @@ subTrack placentalChainNetViewchain off subGroups view=chain species=s042 clade=c01 shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain lepWed1 otherDb lepWed1 track chainMusFur1 subTrack placentalChainNetViewchain off subGroups view=chain species=s043 clade=c01 shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain musFur1 otherDb musFur1 + track chainEnhLutNer1 + subTrack placentalChainNetViewchain off + subGroups view=chain species=s043a clade=c01 + shortLabel $o_Organism Chain + longLabel $o_Organism ($o_date) Chained Alignments + type chain enhLutNer1 + otherDb enhLutNer1 + track chainNeoSch1 subTrack placentalChainNetViewchain off subGroups view=chain species=s044 clade=c01 shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain neoSch1 otherDb neoSch1 track chainOdoRosDiv1 subTrack placentalChainNetViewchain off subGroups view=chain species=s045 clade=c01 shortLabel $o_Organism Chain longLabel $o_Organism ($o_date) Chained Alignments type chain odoRosDiv1 otherDb odoRosDiv1 @@ -1397,30 +1405,38 @@ subTrack placentalChainNetViewnet off subGroups view=net species=s042 clade=c01 shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign lepWed1 chainLepWed1 otherDb lepWed1 track netMusFur1 subTrack placentalChainNetViewnet off subGroups view=net species=s043 clade=c01 shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign musFur1 chainMusFur1 otherDb musFur1 + track netEnhLutNer1 + subTrack placentalChainNetViewnet off + subGroups view=net species=s043a clade=c01 + shortLabel $o_Organism Net + longLabel $o_Organism ($o_date) Alignment Net + type netAlign enhLutNer1 chainEnhLutNer1 + otherDb enhLutNer1 + track netNeoSch1 subTrack placentalChainNetViewnet off subGroups view=net species=s044 clade=c01 shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign neoSch1 chainNeoSch1 otherDb neoSch1 track netOdoRosDiv1 subTrack placentalChainNetViewnet off subGroups view=net species=s045 clade=c01 shortLabel $o_Organism Net longLabel $o_Organism ($o_date) Alignment Net type netAlign odoRosDiv1 chainOdoRosDiv1 otherDb odoRosDiv1