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Refactor the dynamics #549

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Refactor the dynamics #549

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9548b9b
create Dynamics class
Sichao25 Jun 2, 2023
bfc590f
func to methods
Sichao25 Jun 2, 2023
b689c55
add sanity check method
Sichao25 Jun 2, 2023
4ebf215
optimize structure
Sichao25 Jun 7, 2023
0de649f
reconstruct basic framework
Sichao25 Jun 12, 2023
7057ad1
implement caller
Sichao25 Jun 12, 2023
f1fb199
add sskin class
Sichao25 Jun 13, 2023
d5d7cce
modify the structure of labeled dynamics
Sichao25 Jun 13, 2023
366926a
implement existing mix methods
Sichao25 Jun 13, 2023
762039a
finalize wrapper
Sichao25 Jun 13, 2023
6090979
debug wrapper and kin
Sichao25 Jun 13, 2023
35a3de4
add base docstr and all typing
Sichao25 Jun 14, 2023
c0e2c94
add docstr for subclass
Sichao25 Jun 14, 2023
b6ae88e
add to tl init
Sichao25 Jun 16, 2023
09843fa
debug
Sichao25 Jun 16, 2023
067dac7
add subclass KineticsStormDynamics and upload storm.py to support Sto…
QiangweiPeng Jun 19, 2023
8d13133
Modify the relevant code to support cell-specific beta
QiangweiPeng Jun 19, 2023
eca797e
Add code to moments.py that calculates the moments needed for the sto…
QiangweiPeng Jun 19, 2023
e88738c
Added the parameter inference method storm for one-shot experiments
QiangweiPeng Jun 21, 2023
395c9cd
rename functions
Sichao25 Jun 21, 2023
9cc6df7
Merge branch 'Sichao25:master' into add_storm
QiangweiPeng Jul 6, 2023
3bfb7e8
Delete scEU-seq_CellCycle_CSP_CSZIP.py
QiangweiPeng Jul 6, 2023
25a2831
Delete cell_cycle_CSPss.py
QiangweiPeng Jul 6, 2023
9e58e2a
Merge branch 'add_storm' into refactor
QiangweiPeng Jul 7, 2023
561d737
reformat tab space
Sichao25 Jul 7, 2023
6551cde
rename storm func
Sichao25 Jul 7, 2023
ef9682a
reformat storm
Sichao25 Jul 7, 2023
ea31eec
create kinetic params est func
Sichao25 Jul 25, 2023
8196ce0
create ss fit functions
Sichao25 Jul 26, 2023
3a56217
create kinetic params estimation class
Sichao25 Jul 26, 2023
b661403
call refactored params estimation
Sichao25 Jul 26, 2023
5b1267b
create docstr
Sichao25 Jul 27, 2023
7ac035c
delete tutorial script
Sichao25 Aug 22, 2023
c8d72e6
Merge branch 'master' into refactor
Sichao25 Sep 29, 2023
4075eae
Merge branch 'master' into refactor
Sichao25 Sep 29, 2023
333740c
Merge branch 'master' into refactor
Sichao25 Oct 10, 2023
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