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Added optional --fitted_hist option to generate probabilities and lookup table (useful for Merfin) #53

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Added optional --fitted_hist option to generate probabilities and lookup table (useful for Merfin) #53

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@gf777 gf777 commented Mar 3, 2021

This optional option generates 2 extra outputs:

  1. a plot with fitted histogram for 0-4 copy kmers and associated probabilities
  2. a corresponding lookup table with multiplicities and associated probabilities

tbenavi1 and others added 30 commits April 25, 2017 11:46
@tbenavi1
Update run_sweep.sh
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@tbenavi1
Update simhisto.sh
a380342
@tbenavi1
Update eval_err.pl
f6c844a
@tbenavi1
Update simgenome.pl
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@tbenavi1
Update simhisto.sh
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@tbenavi1
Add files via upload
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@tbenavi1
Add files via upload
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@tbenavi1
Update genomescope.R
a37cc61
@tbenavi1
Update genomescope.R
fa32668
@tbenavi1
Update chromosomeMutator.py
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@tbenavi1
Update parameteranalysis.py
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@tbenavi1
Rename README.md to README2.md
17c6196
@tbenavi1
Create README.md
e4cdc69
@tbenavi1
Update README.md
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@tbenavi1
Update README.md
0b23e8b
@tbenavi1
Update README.md
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@tbenavi1
Update simgenome.pl
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@tbenavi1
Update simgenome.pl
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@tbenavi1
Update simgenome.pl
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@tbenavi1
Update genomescope.R
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@tbenavi1
Create genomescope_newmodel.R
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@calcnerd76
refactored into R package
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@calcnerd76
refactored into R package
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@calcnerd76
merged changes
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@calcnerd76
fixed ending brace
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@calcnerd76
fixed p=4 model
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@calcnerd76
add DESCRIPTION
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@calcnerd76
add NAMESPACE
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@calcnerd76
fixed constraints for p=4
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@calcnerd76
fixed boundaries
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Timothy Ranallo-Benavidez and others added 30 commits August 19, 2019 12:11
change readme
a953105
update
97e43b3
deleted analysis folder
b8b1825
add kmer coverage as optional input for website
7804516
polyploid examples for website
f75557e
website updates
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website updates
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add polyploid descriptions to website
965b559
add analysis files to github
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write installation script
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add installation instructions to readme
d6e21e1
DOI for preprint
3a61c13
Added p=1 and p=2 to simulated data
aade38e
@tbenavi1
remove p=1 from heterozygosities
248c760
fix typo
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@tbenavi1
fix naming for length commands
f19aebd
add num_rounds advanced parameter
e3fcdd5
Merge branch 'master' of https://github.com/tbenavi1/genomescope
71a6416 
merged
@tbenavi1
add smudgeplot simulated analysis
2916949
@tbenavi1
add smudgeplot simulated analysis
e14dbc3
@tbenavi1
add smudgeplot simulated analysis
ec5086a
@tbenavi1
Update repetitiveness_smudgeplot_commands.py
7dc6806
update citation
8a1acba
@tbenavi1
Update README.md
68cc1ad
@mschatz
stop counting line numbers after 100k to avoid gateway timeout
f27d326
@mschatz
updates for genomescope 2.0 url
d209051
@mschatz
Merge branch 'master' of https://github.com/tbenavi1/genomescope2.0
5034ed4
@gf777
added fitted hist and probabilities, fixed issue with install.R repo
d72090a
@gf777
Update report_results.R
e82f41d
@gf777
Update report_results.R
5b2d2eb
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4 participants
@gf777 @tbenavi1 @calcnerd76 @mschatz