Commits for markd
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v429_preview2 to v429_base (2022-03-28 to 2022-04-04) v429
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76ddee8cdcaad56a1fda557ad11ef437111c4d76 Tue Mar 15 19:19:07 2022 -0700
- added CAT+Liftoff genes
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/build.txt - lines changed 8, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/makefile - lines changed 3, context: html, text, full: html, text
e6908b59adab1653c4fe5d149e4e5711bcc8b65e Wed Mar 16 08:04:34 2022 -0700
- indicate version number in catLiftOffGenes dataset
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/build.txt - lines changed 7, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/catLiftOffGenes.html - lines changed 104, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/catLiftOffGenesV1.html - lines changed 104, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/catLiftOffGenes.trackDb.txt - lines changed 17, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/catLiftOffGenesV1.trackDb.txt - lines changed 17, context: html, text, full: html, text
deb2cc2117baca732f1ce86e6e63d10d0710a033 Wed Mar 16 17:05:19 2022 -0700
- update citation for sedefSegDups
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/sedefSegDups.html - lines changed 3, context: html, text, full: html, text
a399d1ddab6d8f7456d94e7bcf4f3e3ef14ddbd3 Mon Mar 28 13:37:31 2022 -0700
- added human reference liftover chain tracks
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/build.txt - lines changed 68, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/hgLiftOver.html - lines changed 89, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/hgLiftOver.trackDb.txt - lines changed 33, context: html, text, full: html, text
4d85bbb2c1aee65ec5d504ebf123c23043da10a4 Mon Mar 28 16:23:38 2022 -0700
- move liftOver files to standard locations and simplify makefile
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/build.txt - lines changed 9, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/hgLiftOver.html - lines changed 4, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/makefile - lines changed 29, context: html, text, full: html, text
150df3f02a2b9f29e9c21d2de1d9db608fc8c574 Tue Mar 29 09:55:40 2022 -0700
- make naming of chain tracks consistent with browser; added mask file
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/build.txt - lines changed 31, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/hgLiftOver.html - lines changed 7, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/hgLiftOver.trackDb.txt - lines changed 4, context: html, text, full: html, text
9608f328dbc9337ee107fa01a40b948657f07709 Tue Mar 29 10:12:14 2022 -0700
- updated liftover alignment labels
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/hgLiftOver.html - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/hgLiftOver.trackDb.txt - lines changed 3, context: html, text, full: html, text
e5f2b5cb689c5bd5c71872a400884d70cd4d2413 Tue Mar 29 13:05:59 2022 -0700
- Added liftover chains for T2T CHM13. Clicking on these currently fails due to chromAlias issues.
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/build.txt - lines changed 7, context: html, text, full: html, text
- src/hg/makeDb/doc/hg19.txt - lines changed 36, context: html, text, full: html, text
- src/hg/makeDb/doc/hg38/chm13LiftOver.txt - lines changed 38, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/chm13LiftOver.html - lines changed 69, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/chm13LiftOver.ra - lines changed 10, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/trackDb.ra - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg38/chm13LiftOver.html - lines changed 78, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg38/chm13LiftOver.ra - lines changed 10, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg38/trackDb.ra - lines changed 2, context: html, text, full: html, text
94f37bab4351f8d08dcee2d168a7d12ba6621719 Tue Mar 29 15:46:31 2022 -0700
- moved liftOver track and renamed
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/build.txt - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/hgCactus.html - lines changed 44, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/makefile - lines changed 7, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/hgCactus.trackDb.txt - lines changed 46, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/hgLiftOver.trackDb.txt - lines changed 7, context: html, text, full: html, text
79b2fe41306f412f04b9148e7ea23c997b97301f Tue Mar 29 22:24:11 2022 -0700
- added censat track
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/build.txt - lines changed 69, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/censat.html - lines changed 34, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/makefile - lines changed 2, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/schema/cenSat.as - lines changed 14, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/censat.trackDb.txt - lines changed 11, context: html, text, full: html, text
eadd2058507213bb801b09cfedff55a40ae5492c Tue Mar 29 22:34:41 2022 -0700
- add mouseover to censat
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/censat.trackDb.txt - lines changed 1, context: html, text, full: html, text
f59b87d2038e90c7969da0fa0cc3652d41720881 Wed Mar 30 12:34:29 2022 -0700
- create hg19/hg39 CHM13 liftover chains using NCBI names for now
- src/hg/makeDb/doc/hg19.txt - lines changed 19, context: html, text, full: html, text
- src/hg/makeDb/doc/hg38/chm13LiftOver.txt - lines changed 18, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg19/chm13LiftOver.ra - lines changed 3, context: html, text, full: html, text
- src/hg/makeDb/trackDb/human/hg38/chm13LiftOver.ra - lines changed 3, context: html, text, full: html, text
9a80954c855303d4a534f54661497d14a8f62d7c Wed Mar 30 21:26:31 2022 -0700
- added dbSNP155, clinVar20220313, and gwasSNPs2022-03-08 tracks
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/build.txt - lines changed 53, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/clinVar20220313.html - lines changed 14, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/dbSNP155.html - lines changed 14, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/gwasSNPs2022-03-08.html - lines changed 14, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/hgUnique.html - lines changed 28, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/makefile - lines changed 1, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/clinVar20220313.trackDb.txt - lines changed 9, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/dbSNP155.trackDb.txt - lines changed 9, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/gwasSNPs2022-03-08.trackDb.txt - lines changed 9, context: html, text, full: html, text
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/trackDb/hgUnique.trackDb.txt - lines changed 34, context: html, text, full: html, text
a5e35bab38e9500347ce8262090777322be91560 Wed Mar 30 21:55:02 2022 -0700
- updated hg19 liftOver tracks to add in missing chroms
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/build.txt - lines changed 7, context: html, text, full: html, text
633d579bebb659ba2e74d036d06560dc37c574f4 Wed Mar 30 22:27:29 2022 -0700
- updated unique regions
- src/hg/makeDb/doc/GCA_009914755.4_CHM13_T2T_v2.0/html/hgUnique.html - lines changed 36, context: html, text, full: html, text
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