View source: R/SummaryFragments.R
Export_Summary_Fragments | R Documentation |
Export Summary Count from Indel/SV Results
Export_Summary_Fragments(
Input,
Mut_EL_th = NA,
Mut_Rank_th = NA,
Total_RNA_th = NA,
Tumor_RNA_th = NA,
MutRatio_th = NA,
WriteLongIndel = NA,
DupCount = FALSE
)
Input |
Input file generated from MainSNVClass1,2. |
Mut_EL_th |
The threshold for mutant peptide to be neoantigen by EL. |
Mut_Rank_th |
The threshold for mutant peptide to be neoantigen by Rank. |
Total_RNA_th |
The total RNA expression threshold. |
Tumor_RNA_th |
The tumor specific RNA expression threshold. |
MutRatio_th |
The mutation ratio threshold. |
WriteLongIndel |
If setting a file name, Write Long Indels of which the p-value is less than 0.05. |
DupCount |
Count for each different HLA type |
Num_Alteration The number of evaluated alterations.
Num_Alteration_Generating_NeoAg The number of evaluated alterations that can generate neoantigen.
Num_Peptide The number of evaluated peptifdes.
Num_Peptide_Generating_NeoAg The number of evaluated peptides that can be neoantigen.
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