View source: R/SummaryIndelSV_perFragments.R
Export_Summary_IndelSV_perFragments | R Documentation |
Export Summary Count from Indel/SV Results
Export_Summary_IndelSV_perFragments(
Input,
Mut_EL_th = NA,
Mut_Rank_th = NA,
Total_RNA_th = NA,
Tumor_RNA_th = NA,
MutRatio_th = NA,
Weight = NA,
WriteLongIndel = NA,
IgnoreLongIndel = 0,
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. |
Weight |
The weight for alterations. |
WriteLongIndel |
If setting a file name, Write Long Indels of which the p-value is less than 0.05. |
IgnoreLongIndel |
Ignore Indels of which p-value is less than the indicated value for counting. |
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.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.