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add cores arg to methSeg #120

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add cores arg to methSeg #120

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c75ce35
added estimate.params.density param to methSeg
katwre Jun 13, 2018
5378e61
remove if clause
katwre Jun 14, 2018
eb85d01
fix previous commit
katwre Jun 14, 2018
a51c93e
Updates to @katwre pull request:
alexg9010 Jun 14, 2018
d3970a8
Update methSeg.R
alexg9010 Jun 16, 2018
b5df9d0
update documentation
alexg9010 Jun 18, 2018
75b949f
update NEWS and version bump
alexg9010 Jun 18, 2018
4395aaf
Added cores to methSeg
katwre Jun 28, 2018
6e9dd28
modified man/methSeg.Rd
katwre Jun 28, 2018
e628ede
mc.cores, tests methylRawDB and other improvem.
katwre Jun 29, 2018
aff6561
Add more comments
katwre Jul 2, 2018
f8020c0
don't subsample segments after joining neighbouring segments
katwre Jul 3, 2018
f747c67
keep only seqlevels that are non-empty
katwre Jul 15, 2018
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5 changes: 3 additions & 2 deletions DESCRIPTION
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Original file line number Diff line number Diff line change
Expand Up @@ -2,14 +2,15 @@ Package: methylKit
Type: Package
Title: DNA methylation analysis from high-throughput
bisulfite sequencing results
Version: 1.7.4
Version: 1.7.6
Authors@R: c(person("Altuna", "Akalin", role = c("aut", "cre"),
email = "[email protected]"),
person("Matthias","Kormaksson", role = "aut"),
person("Sheng","Li", role = "aut"),
person("Arsene", "Wabo", role = "ctb"),
person("Adrian", "Bierling", role= "aut"),
person("Alexander","Gosdschan", role="aut"))
person("Alexander","Gosdschan", role="aut"),
person("Katarzyna","Wreczycka", role="ctb"))
Author: Altuna Akalin [aut, cre], Matthias Kormaksson [aut],
Sheng Li [aut], Arsene Wabo [ctb], Adrian Bierling [aut],
Alexander Gosdschan [aut]
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15 changes: 15 additions & 0 deletions NEWS
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@@ -1,8 +1,23 @@
methylKit 1.7.6
--------------
NEW FUNCTIONS AND FEATURES
* methSeg(): introduce parameter `cores` to run fastseg in parallel
per chromosome; update description; add tests


methylKit 1.7.5
--------------
NEW FUNCTIONS AND FEATURES
* methSeg(): introduce parameter `initialize.on.subset` to subset data
for initialization of mixture modeling; update description; add tests


methylKit 1.7.4
--------------
IMPROVEMENTS AND BUG FIXES
* update link to test-file for methSeg() function


methylKit 1.7.3
--------------
IMPROVEMENTS AND BUG FIXES
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