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History Graph
History Graph
Commit | Author | Details | Committed | ||||
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e0c09ada6d27 | pulver | updating core functions and comments | Oct 22 2021 | ||||
9e7f8f8ea37a | pulver | getActivities corrected | May 10 2021 | ||||
41025990ec59 | pulver | standardize option and computing lambda max on a single core for large N… | May 10 2021 | ||||
8c6eedd021ee | pulver | fixed typo | Mar 24 2021 | ||||
ddb95f8614d6 | pulver | not scaling E anymore (fix) | Mar 24 2021 | ||||
aa20a422d671 | pulver | estimateRMSE | Mar 9 2021 | ||||
fb7910dfeaa3 | pulver | updated results of getSignifAct | Mar 8 2021 | ||||
6388e9e8b295 | pulver | removed the whole summary from the result of getSignifActivities.R | Jan 5 2021 | ||||
7faa6aa4bff3 | pulver | started new sample string | Jan 4 2021 | ||||
6b73088ced3f | pulver | treatment and control groups added to the ouptut of getSignifActivities | Jan 4 2021 | ||||
45179506f662 | pulver | added gc() to free memory during preprocess_E_N | Dec 16 2020 | ||||
f2878aa0a65c | pulver | corrected index bug for N_concat | Dec 16 2020 | ||||
d1d772f30198 | pulver | added getSignifActivities.R | Dec 14 2020 | ||||
f7db3c4ae278 | pulver | column centering E before row-centering | Dec 14 2020 | ||||
bececb767f56 | pulver | correcting broadcasting error in get_pseudocounts | Oct 5 2020 | ||||
d4ff7541dee4 | pulver | giving N, plotting log tpm | Oct 2 2020 | ||||
3d8460088d95 | pulver | preprocessing of E and N automatic | Oct 2 2020 | ||||
009fa13b09e5 | pulver | row_center.R | Oct 2 2020 | ||||
b2f5e5c3acba | pulver | get_pseudocounts.R | Oct 2 2020 | ||||
3fc7a956c985 | pulver | getActivities with single lambda value across samples | Sep 28 2020 | ||||
b0befcd88f65 | pulver | do not correct names of predictors | Sep 24 2020 | ||||
a3ee0478f38a | pulver | typos | Sep 16 2020 | ||||
8aa38fb18466 | pulver | removing goldenpath link causing crash | Sep 16 2020 | ||||
40a28e5bfd2c | pulver | tyding up get_tpm.R | Sep 16 2020 | ||||
3ebba925f3ad | pulver | tydied up get_tpm.R | Sep 16 2020 | ||||
49baf4cb6710 | pulver | get_tpm in separate file | Sep 16 2020 | ||||
3f1e68b9bacd | pulver | typo | Sep 15 2020 | ||||
351a1bdc9336 | pulver | getActivities log ID | Sep 15 2020 | ||||
3f5290bdbc76 | pulver | ylim on plotActivities | Sep 15 2020 | ||||
1c05ceb60837 | pulver | size of labels plotActivities | Apr 22 2020 | ||||
b3bb144caa65 | pulver | cvsd rename in res list | Apr 16 2020 | ||||
0df5e1dc3da4 | pulver | cvsd fix indexing problem | Apr 16 2020 | ||||
6893a2a12861 | pulver | added cv error and cv std to the result lists of getActivities | Apr 16 2020 | ||||
2ef96af9c686 | pulver | added lamba_min to the return of getActivities | Apr 16 2020 | ||||
48057c61b909 | pulver | camelCap getActivities | Apr 15 2020 | ||||
1d8d54950a2f | pulver | corrected perspectives | Apr 9 2020 | ||||
d4a2d7ac5a71 | pulver | plotActivities | Apr 9 2020 | ||||
c66180c8bfd1 | pulver | TPM mappable normalization not finished | Apr 9 2020 | ||||
5f9fd1c6fd93 | pulver | simple parallel with 1 core per glmnet instance, no parallel on CV | Apr 6 2020 | ||||
f7804fe4fb09 | pulver | default k fold = 5 | Apr 3 2020 | ||||
cecfd2d4e51d | pulver | clean output as list of r2 and activities for get_activities | Apr 3 2020 | ||||
15c3143b1f5d | pulver | get_coefficients polished and tested on sample matrices. Not confirmed on whole… | Mar 24 2020 | ||||
2c9dca0a3566 | pulver | get_coefficients for ISMARA like TF activity analysis, doesnt run yet | Mar 23 2020 | ||||
9c18b24957b9 | pulver | corrected high leverage function to work with hat and not hatvalues (predictor… | Mar 16 2020 | ||||
06f2b57d66dd | pulver | bullshit function purge high leverage points and aliases lm() | Mar 16 2020 | ||||
998681712f0b | pulver | get aliased predictors from lm() | Mar 16 2020 | ||||
30705d0969a7 | pulver | fixed conflict caused by --amend after push for high leverage points | Mar 16 2020 | ||||
2210fb6c958f | pulver | high leverage points | Mar 16 2020 | ||||
894d5020d0d8 | pulver | high leverage points | Mar 16 2020 | ||||
fd2803c34f0a | pulver | R function source file get_TPM and correlation heatmap | Mar 11 2020 |
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