MiRNASpeciesAnnot: MiRNASpeciesAnnot

In brengong/ConservationtextmineR:

Description

Adds two extra columns to a data.table of the Species a miRNA originates in Scientific_Name and common designations Requires a data.table with the column housing the miRNA labelled "miRNA_Name

Usage

MiRNASpeciesAnnot(MiRNADT)

Arguments

MiRNADT

a data table with one labeled miRNA_Name that harbors the miRNA name.

Value

A data table containing the following columns:

Author(s)

Brendan Gongol

Examples

miRNA_Name <- c("hsa-let-7","cel-lin-4","aae-mir-1","bol-mir-2","rno-mir-34","cel-mir-35",
                "cel-let-7-5p", "cel-let-7-3p", "cel-lin-4-5p", "cel-lin-4-3p", "cel-miR-1-5p", "ame-miR-9895",
                "hsa-miR-9896", "rno-miR-3478", "mmu-miR9897-5p", "cre-miR9897-3p")
MiRNADT<- data.frame(cbind(miRNA_Name))
MiRNASpeciesAnnot(MiRNADT)


Sequence <- c("UAGCGAUUGGAUCCGGUGAGGUAGUAGGUUGUAUAGUUUGGAAUAUUACCACCGGUGAACUAUGCAAUUUUCUACCUUACCGGAGACAGAACUCUUCGA",
              "AUGCUUCCGGCCUGUUCCCUGAGACCUCAAGUGUGAGUGUACUAGCGAUGCUUCACACCUGGGCUCUCCGGGUACCAGGACGGUUUGAGCAGAU",
              "AAAGUGACCGUACCGAGCUGCAUACUUCCUUACAUGCCCAUACUAUAUCAUAAAUGGAUAUGGAAUGUAAAGAAGUAUGUAGAACGGGGUGGUAGU ",
              "UAAACAGUAUACAGAAAGCCAUCAAAGCGGUGGUUGAUGUGUUGCAAAUUAUGACUUUCAUAUCACAGCCAGCUUUGAUGUGCUGCCUGUUGCACUGU",
              "CGGACAAUGCUCGAGAGGCAGUGUGGUUAGCUGGUUGCAUAUUUCCUUGACAACGGCUACCUUCACUGCCACCCCGAACAUGUCGUCCAUCUUUGAA",
              "UAGCGAUUCAGAUCGAGCCAUUGCUGGUUUCUUCCACAGUAGCGAUUUCCAUUAGAACUAUCACCGGGUGGAAACUAGCAGUGGCUCGAUUAGCGAU",
              "UGAGGUAGUAGGUUGUAUAGUU", "CUAUGCAUAGCGAUACCUUACC", "UCCCUGAGACCUCAAGUGUGA", "ACACCUGGGCUCUCCGGGUACC",
              "UAGCGAUCCUUACAUGCCCAUA", "UCGUGUCCGUUUCUCGUUUCGA", "ACAAUAAUCGGACACUAGCGAU", "CACACCGGACGAGAUUUCAU",
              "UACCGGGCGUGGGGAGGGCAGG", "UAGCGAUUCCUUCUUAGCGAU")
miRNA_Name <- c("hsa-let-7","cel-lin-4","aae-mir-1","bol-mir-2","rno-mir-34","cel-mir-35",
                "cel-let-7-5p", "cel-let-7-3p", "cel-lin-4-5p", "cel-lin-4-3p", "cel-miR-1-5p", "ame-miR-9895",
                "hsa-miR-9896", "rno-miR-3478", "mmu-miR9897-5p", "cre-miR9897-3p")
miRNA_type <- c("IMMATURE_HAIR_PIN","IMMATURE_HAIR_PIN","IMMATURE_HAIR_PIN","IMMATURE_HAIR_PIN","IMMATURE_HAIR_PIN","IMMATURE_HAIR_PIN",
                "MATURE", "MATURE", "MATURE", "MATURE", "MATURE", "MATURE", "MATURE", "MATURE", "MATURE", "MATURE")
MiRNADT<- data.frame(cbind(Sequence, miRNA_Name, miRNA_type))
MiRNASpeciesAnnot(MiRNADT)

brengong/ConservationtextmineR documentation built on July 29, 2019, 10:05 a.m.