Man pages for hammerlab/rinfino
R-friendly client to run infino (http://github.com/hammerlab/infino)

execute_cibersortExecute cibersort using Rserve
expdata_as_dfconvert expdaat (as GxS matrix) to tbl_df format
expdata_as_matrixconvert expdata (as GxS tbl_df) to matrix format
filter_expdatahelper function to filter gxs expdata more efficiently than...
filter_genesFilter GxS expression data to specific list of genes If...
filter_gxs_expdatahelper function to filter gxs expdata more efficiently than...
genelistSelected genes for use with infino models
load_all_expdataload several expdata files all at once
load_expdataloads expression data in GxS format, with one row per gene &...
load_lm22_genesHelper function to load lm22 genes from cibersort_home and...
merge_expdatamerge expdata dfs together, combining sampleinfo
prep_expression_matrixPrepare expression matrix of transcript- or gene-specific...
rcctils_expressionGene expression matrices for TILs isolated from RCC patients...
rcctils_sampleinfoSample info for TILs isolated from RCC patients (E-MTAB-5640)
run_cibersortRun cibersort on expression data
run_combatRun combat to normalize for batch effects
run_estimateRun estimate on expression data
run_pcarun PCA analysis on expression data
shellHelper to execute shell commands (linux)
singleorigin_expressionGene expression matrices for immune cells isolated from PBMC...
singleorigin_sampleinfoSample info for immune cells isolated from PBMC samples...
test_cibersortTest cibersort using one of the expression matrices provided
transform_cibersort_to_relativeTransform 'Absolute' mode of cibersort results to relative...
transform_sampleidTransform sample_id in both expdata & in attributes
transpose2gxsFunction to transpose an SxG df of expression data into GxS...
transpose2sxgFunction to transpose an GxS df of expression data into SxG...
transpose_expdatahelper function to transpose a dataframe of expression data...
update_sampleinfoUpdate sampleinfo affiliated with expdata
hammerlab/rinfino documentation built on Jan. 11, 2018, 1:13 p.m.