File Changes for vsmalladi
switch to commits view, user indexv266_preview2 to v266_base (2012-04-17 to 2012-04-24) v266
- python/programs/cvValidate/cvValidate
- src/hg/encode/DAFs/3.0/hg19/wgEncodeFsuRepliChip.daf
- lines changed 41, context: html, text, full: html, text
Feedback from NHGRI has indicated that tracks should be named Repli-chip rather than Repli-seq. Redmine #6226, #6627.
- src/hg/encode/DAFs/3.0/hg19/wgEncodeFsuRepliSeq.daf
- lines changed 41, context: html, text, full: html, text
Feedback from NHGRI has indicated that tracks should be named Repli-chip rather than Repli-seq. Redmine #6226, #6627.
- src/hg/encode/DAFs/3.0/mm9/wgEncodeFsuRepliChip.daf
- lines changed 44, context: html, text, full: html, text
Feedback from NHGRI has indicated that tracks should be named Repli-chip rather than Repli-seq. Redmine #6226, #6627.
- src/hg/encode/DAFs/3.0/mm9/wgEncodeFsuRepliSeq.daf
- lines changed 44, context: html, text, full: html, text
Feedback from NHGRI has indicated that tracks should be named Repli-chip rather than Repli-seq. Redmine #6226, #6627.
- src/hg/makeDb/doc/encodeDccHg19/wgEncodeFsuRepliChip.release1.notes
- lines changed 92, context: html, text, full: html, text
Added release 1 notes. Redmine #6626.
- src/hg/makeDb/doc/encodeDccMm9/wgEncodePsuHistone.release1.notes
- lines changed 26, context: html, text, full: html, text
Removed G1E H3k4me1 experiment due to peaks being suspect. Moved experiment to release 2. Redmine #111.
- src/hg/makeDb/trackDb/cv/alpha/cv.ra
- lines changed 7, context: html, text, full: html, text
Feedback from NHGRI has indicated that tracks should be named Repli-chip rather than Repli-seq. Redmine #6226, #6627.
- lines changed 123, context: html, text, full: html, text
Fixed spelling of Provisional. Also fixed biochain links.
- lines changed 5, context: html, text, full: html, text
Added readTypes for LICR RNA-seq data set.
- src/hg/makeDb/trackDb/cv/public/cv.ra
- lines changed 355, context: html, text, full: html, text
Moved approved changes from beta to public. Redmine #7641.
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/makefile
- lines changed 1, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6626.
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeFsuRepliChip.ra
- lines changed 406, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6626.
- lines changed 41, context: html, text, full: html, text
Added UCSC accessions to the track and ready for approval. Redmine #6626.
- lines changed 13, context: html, text, full: html, text
30. Removed dateUnrestricted for: H9ES, H7-ESC, GM06990, BG02ES. Redmine #6626.
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeFsuRepliSeq.ra
- lines changed 406, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6626.
- src/hg/makeDb/trackDb/human/hg19/metaDb/alpha/wgEncodeSydhTfbs.ra
- lines changed 261, context: html, text, full: html, text
Fixed pairing of controls. Redmine #4486.
- lines changed 65, context: html, text, full: html, text
Added missign control for GM08174. Redmine #4486.
- lines changed 27, context: html, text, full: html, text
Fixed naming of control for experiment from UCD to STD. Redmine #4486.
- src/hg/makeDb/trackDb/human/hg19/trackDb.wgEncode.ra
- lines changed 2, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6626.
- src/hg/makeDb/trackDb/human/hg19/wgEncodeFsuRepliChip.html
- lines changed 150, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6626.
- lines changed 14, context: html, text, full: html, text
Fixes for Redmine #6626
1. Description section: In the first sentence, changed "is" to "was".
2. Description section: In the third sentence, "loess-smoothed" added hyphen
3. Description section: In the third sentence, "individual" fixed spelling
4. Methods section, first paragraph: In the Hiratani reference, removed "i"
5. Methods section, first paragraph: Added month to reference to specify with Ryba paper
6. Methods section, Extraction protocol subsection: Lower cased the protocol
7. Methods section, Extraction protocol subsection: In the second sentence, removed "briefly"
8. Methods section, Extraction protocol subsection: changed "are" to "were".
11. Methods section, Hybridization protocol subsection: fixed link
12. Methods section, Hybridization protocol subsection: Change "The hybridization step used the standard NimbleGen protocol."
13. Methods section, Hybridization protocol subsection: In the second sentence, removed "briefly"
14. Methods section, Hybridization protocol subsection: In the second sentence, added hyphen after "Cy3" and a hyphen between "Cy5" and "labeled".
15. Methods section, Hybridization protocol subsection: In the second sentence,replaced "u" with "μ" for micrograms.
16. Methods section, Hybridization protocol subsection: In the second sentence, added hyphen "evenly-spaced"
18. Methods section, Scan protocol subsection: Removed special chacter
19. Methods section, Scan protocol subsection: made "pe" to "per".
20. Methods section, Scan protocol subsection: Fixed link.
21. Methods section, Data processing subsection: In the second sentence, added hyphen after "early" and "late-replicating"
22. Methods section, Data processing subsection: At the end of the second sentence, add "then" before "averaged"
23. Methods section, Data processing subsection: In the last sentence, removed - after 300
24. Credits section: Fixed email link
- lines changed 1, context: html, text, full: html, text
Fixes for Redmine #6626
9. Methods section, Extraction protocol subsection: Merged second and third sentence.
- lines changed 3, context: html, text, full: html, text
Fixes for redmine #6626
11b. Fixed link to not be relative link
20b. Fixed link to not be relative link
24b. Removed < in email link
28. Track Height set to 32
- src/hg/makeDb/trackDb/human/hg19/wgEncodeFsuRepliChip.ra
- lines changed 103, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6626.
- lines changed 1, context: html, text, full: html, text
Fixes for redmine #6626
11b. Fixed link to not be relative link
20b. Fixed link to not be relative link
24b. Removed < in email link
28. Track Height set to 32
- src/hg/makeDb/trackDb/human/hg19/wgEncodeFsuRepliSeq.html
- lines changed 150, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6626.
- src/hg/makeDb/trackDb/human/hg19/wgEncodeFsuRepliSeq.ra
- lines changed 103, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6626.
- src/hg/makeDb/trackDb/human/hg19/wgEncodeSydhTfbs.release2.ra
- lines changed 60, context: html, text, full: html, text
Fixed pairing of controls. Redmine #4486.
- lines changed 8, context: html, text, full: html, text
Added missign control for GM08174. Redmine #4486.
- lines changed 6, context: html, text, full: html, text
Fixed naming of control for experiment from UCD to STD. Redmine #4486.
- src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/makefile
- lines changed 1, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6627.
- src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeFsuRepliChip.ra
- lines changed 1158, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6627.
- lines changed 219, context: html, text, full: html, text
Fixed meta-data that was missed in the renaming . Redmine #6627.
- src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeFsuRepliSeq.ra
- lines changed 1158, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6627.
- src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeLicrRnaSeq.ra
- lines changed 134, context: html, text, full: html, text
Added readTypes for LICR RNA-seq data set.
- src/hg/makeDb/trackDb/mouse/mm9/metaDb/alpha/wgEncodeUwRnaSeq.ra
- lines changed 217, context: html, text, full: html, text
Added readtype. Redmine #4469.
- src/hg/makeDb/trackDb/mouse/mm9/trackDb.wgEncode.ra
- lines changed 2, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6627.
- src/hg/makeDb/trackDb/mouse/mm9/wgEncodeFsuRepliChip.html
- lines changed 149, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6627.
- src/hg/makeDb/trackDb/mouse/mm9/wgEncodeFsuRepliChip.ra
- lines changed 238, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6627.
- src/hg/makeDb/trackDb/mouse/mm9/wgEncodeFsuRepliSeq.html
- lines changed 149, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6627.
- src/hg/makeDb/trackDb/mouse/mm9/wgEncodeFsuRepliSeq.ra
- lines changed 238, context: html, text, full: html, text
Changed RepliSeq to Repli-chip. Redmine #6627.
- src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.html
- lines changed 24, context: html, text, full: html, text
Fixed for Redmine #111
3. Description Section, third paragraph changed "are" to "is"
6. Capatalized bowtie
7. Removed comman after "Since"
8. Added "the" to downloads page link
11. Fixed spacing issue in references links, by moving "</a>." to same line as article title
- lines changed 1, context: html, text, full: html, text
Added a to make sentence readable. Redmine #111.
- lines changed 2, context: html, text, full: html, text
Moved the out of the link for the downloads page. Redmine #111.
- lines changed 1, context: html, text, full: html, text
Added first name to reference of Hardison in Contact section. Redmine #111.
- src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.ra
- lines changed 22, context: html, text, full: html, text
Removed G1E H3k4me1 experiment due to peaks being suspect. Moved experiment to release 2. Redmine #111.
- src/hg/makeDb/trackDb/mouse/mm9/wgEncodePsuHistone.release2.ra
- lines changed 52, context: html, text, full: html, text
Removed G1E H3k4me1 experiment due to peaks being suspect. Moved experiment to release 2. Redmine #111.
- src/hg/utils/automation/Encode.pm
- lines changed 4, context: html, text, full: html, text
Fixed ENCODE freeze date.
switch to commits view, user index