Immunoassay training differential analysis

For each panel and tissue, perform a likelihood ratio test to test the effect of training across time points. Analysis is performed separately for males and females.

Usage

immuno_training_da()

Value

a data frame with one row per feature:

feature_ID

character, MoTrPAC feature identifier

assay

character, assay abbreviation, one of MotrpacRatTraining6moData::ASSAY_ABBREV

assay_code

character, assay code used in data release. See MotrpacBicQC::assay_codes.

dataset

character, LUMINEX panel

tissue

character, tissue abbreviation, one of MotrpacRatTraining6moData::TISSUE_ABBREV

tissue_code

character, tissue code used in data release. See MotrpacBicQC::bic_animal_tissue_code.

removed_samples_male

character, comma-separated list of male samples (vial labels) removed from differential analysis

removed_samples_female

character, comma-separated list of female samples (vial labels) removed from differential analysis

lrt_male

double, likelihood ratio test statistic for males

lrt_female

double, likelihood ratio test statistic for females

p_value_male

double, nominal LRT p-value for males

p_value_female

double, nominal LRT p-value for females

full_model

character, full model used in LRT for males and females

reduced_model

character, reduced model used in LRT for males and females

p_value

double, combined male and female nominal p-value using the sum of logs

Examples

res = immuno_training_da()
#> Group 2w in rat-mag27plex COLON male GCSF has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male TNFA has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male IL18 has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male IL17 has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male IL4 has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male IL5 has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male LIX has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male FRACTALKINE has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male IL12P70 has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male VEGF has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male GMCSF has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male IL13 has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male MCP1 has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male RANTES has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male IL6 has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male MIP2 has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male EOTAXIN has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male IL1A has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male MIP1A has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male IL2 has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male EGF has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male KC has less than 2 values. Removing remaining samples in this group.
#> Group 2w in rat-mag27plex COLON male IFNY has less than 2 values. Removing remaining samples in this group.