Generate customized protein sequence database from RNA-Seq data for proteomics search
|Date of publication||None|
|Maintainer||xiaojing wang <firstname.lastname@example.org>|
aaVariation: get the functional consequencece of SNVs located in coding...
Bed2Range: Generate a GRanges objects from BED file.
calculateRPKM: Caculate RPKM for each transcripts based on exon read counts.
easyRun: An integrated function to generate customized protein...
easyRun_mul: An integrated function to generate consensus protein database...
InputVcf: Generate a list of GRanges objects from a VCF file.
JunctionType: Annotates the junctions in a bed file.
Multiple_VCF: Generate shared variation dataset from multiple VCF files
Outputaberrant: generate FASTA file containing short INDEL
OutputNovelJun: generate peptide FASTA file that contains novel junctions.
Outputproseq: output FASTA format file contains proteins that have...
OutputsharedPro: Output the sequences of proteins with high expressions in...
OutputVarprocodingseq: Output the variant(SNVs) protein coding sequences
OutputVarproseq: Output the variant(SNVs) protein sequences into FASTA format
OutputVarproseq_single: Output the variant(SNVs) protein sequences into FASTA format
Positionincoding: Find the position in coding sequence for each variation.
PrepareAnnotationEnsembl: prepare annotation from ENSEMBL
PrepareAnnotationRefseq: prepare annotation for Refseq
SharedJunc: Generate shared junctions dataset from multiple BED files
Varlocation: Annotates the variations with genomic location.