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Differential Expression Analysis.
Differential Expression Analysis Quality Control
Differential Expression Analysis (Tabbed Report)
Protein Signal Intensities within Groups
Quality Control & Sample Size Estimation
Auxiliary - Bioinformatics Project Meeting Agenda
Reference
add_contrasts_vec
add_RevCon
aggregate_data
AnnotationProcessor
bfabric_url_builder
build_protein_annot
capture_output
column_to_rownames
compute_IBAQ_values
copy_docker_script
copy_shell_script
dataset_get_functions
dataset_protein_annot
dataset_template_BGS
dataset_template_diann
dataset_template_FP_TMT
dataset_template_MAXQUANT
dataset_template_MSSTATS
DEAnalyse
DEAnalysePeptideToProtein
DEAReportGenerator
diann_output_to_peptide
diann_read_output
example_deanalyse
example_qc_generator
exp2
ExternalReader
extract_contrasts
extract_GN
feature_annotation_collapse_to_single_row
feature_annotation_get_best_score
filter_by_peptide_count
FragPipe
get_annot_from_fasta
get_BGS_files
get_CD_export_files
get_CD_subset_columns
get_config
get_DIANN_files
get_dummy_files
get_FP_multiSite_files
get_FP_PSM_files
get_MQ_peptide_files
get_MSstats_files
get_mzMine_files
get_procfuncs
get_SIM_files
LFQData_from_anndata
list_to_R6_app_config
make_annotated_experiment
make_CD_duplicate_features_unique
make_DEA_config_R6
make_feature_annotation
massage_CD
MaxQuant
normalize_path
nr_tryptic_peptides
plot_abundance_vs_percent
plotly_ggplot_subplot
preprocess_anndata_from_lfq
preprocess_BGS
preprocess_CD_export
preprocess_CD
preprocess_DIANN_anndata
preprocess_DIANN
preprocess_dummy
preprocess_FP_PSM
preprocess_MQ_peptide
preprocess_MSstats_FPDIA
preprocess_MSstats
preprocess_mzMine
preprocess_SIM
preprocess_software
ProcessingOptions
ProjectSpec
ProjectStructure
prolfqua_preprocess_functions
ProlfquAppConfig
ProteinAnnotation
ProteinDataPrep
QC_generator
read_annotation
read_BF_yamlR6
read_BGS
read_msstats
read_table_data
route_messages_to_logger
run_contrasts_single
run_contrasts_twofactor
run_dea_cd
run_dea
run_make_yaml
run_qc_preprocess
sanitize_CD_subset_name
set_lib_path
set_list_to_R6
sim_data_protAnnot
strip_rownames
sync_opt_config
tidy_FragPipe_psm_V2
tidy_FragPipe_psm
tidy_mzMineFeatures
transform_lfqdata
validate_prolfquapp_anndata
write_annotation_file
write_index_html
writeLinesPaired
zipdir_name
News
License
Code of conduct
Citation
Reference
get_dummy_files
get_dummy_files
Description
get_dummy_files
Usage
get_dummy_files(path)
Arguments
path
path to data directory