search.db.byname: A search.db.byname Function

In kevinzhongxu/CasOligo: A R package to search the gRNA-target-site oligo for designing the taxon-specific guide RNA used for CRISPR-Cas Selective Amplicon Sequencing (CCSAS) to assess the eukaryotic microbiome of hosts (e.g. metazoans, plant)

A search.db.byname Function

Description

This function allows you to search the target-site oligonucletide sequence of gRNA in the gRNA-targe-site database based on the input name of the host species.

Usage

search.db.byname(query, cas = NULL)

Arguments

query

character, the name of host species or taxonomic group (from species to kingdom) that you expect the gRNA to target.

Examples

search.db.byname(query="Homo sapiens", cas="Cas9")
search.db.byname(query="Salmon", cas="Cas9")
search.db.byname(query="Mollusca", cas="Cas9")
search.db.byname(query="Crassostrea", cas="Cas9")
Please be noted that the name of host species or taxonomic group needs to be a legistimal names appeared in SILVA SSU 18S database.

kevinzhongxu/CasOligo documentation built on Feb. 25, 2025, 8:43 a.m.