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NAMESPACE
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82 lines (81 loc) · 2.24 KB
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# Generated by roxygen2: do not edit by hand
export(CNVtodb_seqone)
export(QCtodb_seqone)
export(addMDtodb)
export(addSampleAttributes)
export(buildDB_sarek)
export(buildDB_seqone)
export(clean_variants_seqone)
export(compute_frequency)
export(compute_sample_frequency)
export(custom_busy_handler)
export(download_genome_reference)
export(get_alignment_adapter)
export(get_assembly_name)
export(get_name)
export(initcomment)
export(is_url)
export(rebuild_indexes)
export(strip_gz)
export(track_alignments)
export(update_db_metadata)
import(JBrowseR)
importFrom(AnnotationDbi,loadDb)
importFrom(DBI,dbConnect)
importFrom(DBI,dbDisconnect)
importFrom(DBI,dbExistsTable)
importFrom(DBI,dbGetQuery)
importFrom(DBI,dbReadTable)
importFrom(DBI,dbSendQuery)
importFrom(DBI,dbWriteTable)
importFrom(GenomicFeatures,exonicParts)
importFrom(GenomicFeatures,exons)
importFrom(GenomicRanges,makeGRangesFromDataFrame)
importFrom(IRanges,stack)
importFrom(RSQLite,SQLite)
importFrom(RSQLite,sqliteSetBusyHandler)
importFrom(VariantAnnotation,geno)
importFrom(VariantAnnotation,header)
importFrom(VariantAnnotation,info)
importFrom(VariantAnnotation,readVcf)
importFrom(VariantAnnotation,scanVcfHeader)
importFrom(crew,crew_controller_local)
importFrom(digest,digest)
importFrom(dplyr,"%>%")
importFrom(dplyr,arrange)
importFrom(dplyr,as_tibble)
importFrom(dplyr,bind_cols)
importFrom(dplyr,bind_rows)
importFrom(dplyr,case_when)
importFrom(dplyr,filter)
importFrom(dplyr,full_join)
importFrom(dplyr,group_by)
importFrom(dplyr,inner_join)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,mutate_all)
importFrom(dplyr,mutate_if)
importFrom(dplyr,rename)
importFrom(dplyr,select)
importFrom(dplyr,slice)
importFrom(dplyr,summarise)
importFrom(httr,GET)
importFrom(httr,POST)
importFrom(jsonlite,fromJSON)
importFrom(magrittr,"%<>%")
importFrom(promises,"%...>%")
importFrom(promises,future_promise)
importFrom(promises,promise_all)
importFrom(reshape2,melt)
importFrom(rlang,enquo)
importFrom(stringr,str_c)
importFrom(stringr,str_detect)
importFrom(stringr,str_replace_all)
importFrom(stringr,str_split)
importFrom(tibble,tibble)
importFrom(tidyr,gather)
importFrom(tidyr,pivot_wider)
importFrom(tidyr,replace_na)
importFrom(tidyr,separate)
importFrom(tidyr,spread)
importFrom(tidyr,unnest)