User Details
User Details
- User Since
- Dec 5 2018, 10:29 (225 w, 1 d)
- Availability
- Available
- Organization
- epfl.ch (university)
Oct 22 2021
Oct 22 2021
updating core functions and comments
May 10 2021
May 10 2021
getActivities corrected
pulver committed R10177:41025990ec59: standardize option and computing lambda max on a single core for large N… (authored by pulver).
standardize option and computing lambda max on a single core for large N…
Mar 24 2021
Mar 24 2021
not scaling E anymore (fix)
Mar 9 2021
Mar 9 2021
estimateRMSE
Mar 8 2021
Mar 8 2021
updated results of getSignifAct
Jan 5 2021
Jan 5 2021
pulver committed R10177:6388e9e8b295: removed the whole summary from the result of getSignifActivities.R (authored by pulver).
removed the whole summary from the result of getSignifActivities.R
Jan 4 2021
Jan 4 2021
started new sample string
pulver committed R10177:6b73088ced3f: treatment and control groups added to the ouptut of getSignifActivities (authored by pulver).
treatment and control groups added to the ouptut of getSignifActivities
Dec 16 2020
Dec 16 2020
pulver committed R10177:45179506f662: added gc() to free memory during preprocess_E_N (authored by pulver).
added gc() to free memory during preprocess_E_N
corrected index bug for N_concat
Dec 14 2020
Dec 14 2020
added getSignifActivities.R
column centering E before row-centering
Oct 5 2020
Oct 5 2020
pulver committed R10177:bececb767f56: correcting broadcasting error in get_pseudocounts (authored by pulver).
correcting broadcasting error in get_pseudocounts
Oct 2 2020
Oct 2 2020
giving N, plotting log tpm
preprocessing of E and N automatic
row_center.R
get_pseudocounts.R
Sep 28 2020
Sep 28 2020
pulver committed R10177:3fc7a956c985: getActivities with single lambda value across samples (authored by pulver).
getActivities with single lambda value across samples
Sep 24 2020
Sep 24 2020
do not correct names of predictors
Sep 16 2020
Sep 16 2020
removing goldenpath link causing crash
tyding up get_tpm.R
tydied up get_tpm.R
get_tpm in separate file
Sep 15 2020
Sep 15 2020
getActivities log ID
ylim on plotActivities
Jul 10 2020
Jul 10 2020
data + notebook, cerebroviz
Jul 6 2020
Jul 6 2020
problem set 3 finished
Jun 26 2020
Jun 26 2020
problem set 3
Jun 24 2020
Jun 24 2020
problem set 2 exo 6
Jun 16 2020
Jun 16 2020
pulver committed R10595:070ad35043e1: detected an anomaly for a ZKSCAN1 motif, removed the motif from the set to… (authored by pulver).
detected an anomaly for a ZKSCAN1 motif, removed the motif from the set to…
pulver committed R10595:7b2a68bcab8f: filtered out Transfac, non human, not directly determined motifs (authored by pulver).
filtered out Transfac, non human, not directly determined motifs
pulver committed R10595:4f5248d3bebe: MEME prototype converted matrix worked (with sanity checks) (authored by pulver).
MEME prototype converted matrix worked (with sanity checks)
pulver committed R10595:ce52ce681f41: prototype conversion from cisbp to meme, untested (authored by pulver).
prototype conversion from cisbp to meme, untested
Jun 10 2020
Jun 10 2020
Apr 22 2020
Apr 22 2020
size of labels plotActivities
Apr 16 2020
Apr 16 2020
cvsd rename in res list
cvsd fix indexing problem
pulver committed R10177:6893a2a12861: added cv error and cv std to the result lists of getActivities (authored by pulver).
added cv error and cv std to the result lists of getActivities
pulver committed R10177:2ef96af9c686: added lamba_min to the return of getActivities (authored by pulver).
added lamba_min to the return of getActivities
Apr 15 2020
Apr 15 2020
camelCap getActivities
Apr 9 2020
Apr 9 2020
corrected perspectives
plotActivities
TPM mappable normalization not finished
Apr 6 2020
Apr 6 2020
pulver committed R10177:5f9fd1c6fd93: simple parallel with 1 core per glmnet instance, no parallel on CV (authored by pulver).
simple parallel with 1 core per glmnet instance, no parallel on CV
Apr 3 2020
Apr 3 2020
default k fold = 5
pulver committed R10177:cecfd2d4e51d: clean output as list of r2 and activities for get_activities (authored by pulver).
clean output as list of r2 and activities for get_activities
Mar 24 2020
Mar 24 2020
pulver committed R10177:15c3143b1f5d: get_coefficients polished and tested on sample matrices. Not confirmed on whole… (authored by pulver).
get_coefficients polished and tested on sample matrices. Not confirmed on whole…
Mar 23 2020
Mar 23 2020
pulver committed R10177:2c9dca0a3566: get_coefficients for ISMARA like TF activity analysis, doesnt run yet (authored by pulver).
get_coefficients for ISMARA like TF activity analysis, doesnt run yet
Mar 16 2020
Mar 16 2020
pulver committed R10177:9c18b24957b9: corrected high leverage function to work with hat and not hatvalues (predictor… (authored by pulver).
corrected high leverage function to work with hat and not hatvalues (predictor…
pulver committed R10177:06f2b57d66dd: bullshit function purge high leverage points and aliases lm() (authored by pulver).
bullshit function purge high leverage points and aliases lm()
get aliased predictors from lm()
pulver committed R10177:30705d0969a7: fixed conflict caused by --amend after push for high leverage points (authored by pulver).
fixed conflict caused by --amend after push for high leverage points
high leverage points
high leverage points
Mar 11 2020
Mar 11 2020
pulver committed R10177:fd2803c34f0a: R function source file get_TPM and correlation heatmap (authored by pulver).
R function source file get_TPM and correlation heatmap
Jan 15 2020
Jan 15 2020