Man pages for hase62/Neoantimon
Neoantimon: A multifunctional R package for identification of tumor-specific neoantigens
| CalculatePriorityScores | Calculate priority scores |
| Export_Summary_Entire_Fragments | Export Summary Count from Indel/SV Results |
| Export_Summary_Fragments | Export Summary Count from Indel/SV Results |
| Export_Summary_IndelSV | Export Summary Count from Indel/SV Results |
| Export_Summary_IndelSV_perFragments | Export Summary Count from Indel/SV Results |
| Export_Summary_SNV | Export Summary Count from SNV Results |
| MainEntireRegionClass1 | Calculate A Set All Neoantigen Candidates from A Given Gene... |
| MainEntireRegionClass2 | Calculate A Set All Neoantigen Candidates from A Given Gene... |
| MainINDELClass1 | Calculate Neoantigen Candidates on INDELs for MHC Class1 |
| MainINDELClass2 | Calculate Neoantigen Candidates on INDELs for MHC Class2 |
| MainSeqFragmentClass1 | Calculate Neoantigen Candidates from A Given Sequence for MHC... |
| MainSeqFragmentClass2 | Calculate Neoantigen Candidates from A Given Sequence for MHC... |
| MainSNVClass1 | Calculate Neoantigen Candidates on SNVs for MHC Class1 |
| MainSNVClass2 | Calculate Neoantigen Candidates on SNVs for MHC Class2 |
| MainSVFUSIONClass1 | Calculate Neoantigen Candidates on SV fusions for MHC Class1 |
| MainSVFUSIONClass2 | Calculate Neoantigen Candidates on SV fusions for MHC Class2 |
| sample_copynum | A Format / Sample file for Copy Number Information |
| sample_hla_table_c1 | A Format / Sample file for HLA CLASS1 Table |
| sample_hla_table_c2 | A Format / Sample file for HLA CLASS2 Table |
| sample_refFlat.grch37 | A Sample file for refFlat |
| sample_refMrna.grch37.fa | A Sample file for refSeq RNA |
| sample_result_INDEL_CLASS1_ALL | Analyzed Result for INDEL CLASS1 |
| sample_result_INDEL_CLASS2_ALL | Analyzed Result for INDEL CLASS2 |
| sample_result_SeqFragment_CLASS1_ALL | Analyzed Result for A DNA Fragment CLASS1 |
| sample_result_SeqFragment_CLASS2_ALL | Analyzed Result for A DNA Fragment CLASS2 |
| sample_result_SNV_CLASS1_ALL | Analyzed Result for SNV CLASS1 |
| sample_result_SNV_CLASS2_ALL | Analyzed Result for SNV CLASS2 |
| sample_result_SVFusion_CLASS1_ALL | Analyzed Result for SV Fusion CLASS1 |
| sample_result_SVFusion_CLASS2_ALL | Analyzed Result for SVFusion CLASS2 |
| sample_rna_exp | A Format / Sample file for RNA Expression Information |
| sample_sv_bnd | A Format / Sample file for Annotated vcf file. |
| sample_vcf.annovar | A Format / Sample file for Annotated vcf file basef on... |
| sample_vcf.snps | A Format / Sample file for snp informatin. |
| sample_vcf.vep | A Format / Sample file for Annotated vcf file based on VEP. |
| TestAnalysis | Execute Sample Analysis |
