Merge pull request #61 from teddyCodex/issue-38-rename-functions

Refactored function names in R/cleanup.R
- fixes #38

NAMESPACE

@@ -19,15 +19,16 @@ export(advanced_opts2est_walltime)
 export(alignFasta)
 export(assert_count_df)
 export(assign_job_queue)
-export(cleanup_GeneDesc)
-export(cleanup_clust)
-export(cleanup_domarch)
-export(cleanup_gencontext)
-export(cleanup_lineage)
-export(cleanup_species)
+export(cleanClusters)
+export(cleanDomainArchitecture)
+export(cleanGeneDescription)
+export(cleanGenomicContext)
+export(cleanLineage)
+export(cleanSpecies)
 export(combine_files)
 export(combine_full)
 export(combine_ipr)
+export(condenseRepeatedDomains)
 export(convert2TitleCase)
 export(convertAlignment2FA)
 export(convert_aln2fa)
@@ -40,6 +41,7 @@ export(create_lineage_lookup)
 export(create_one_col_params)
 export(domain_network)
 export(efetch_ipg)
+export(extractAccNum)
 export(filter_by_doms)
 export(filter_freq)
 export(find_paralogs)
@@ -69,26 +71,23 @@ export(mapAcc2Name)
 export(map_acc2name)
 export(map_advanced_opts2procs)
 export(msa_pdf)
-export(pick_longer_duplicate)
 export(plot_estimated_walltimes)
 export(prot2tax)
-export(prot2tax_old)
-export(remove_astrk)
-export(remove_empty)
-export(remove_tails)
+export(removeAsterisks)
+export(removeEmptyRows)
+export(removeTails)
 export(renameFA)
 export(rename_fasta)
-export(repeat2s)
-export(replaceQMs)
+export(replaceQuestionMarks)
 export(reveql)
 export(reverse_operon)
 export(run_deltablast)
 export(run_rpsblast)
+export(selectLongestDuplicate)
 export(send_job_status_email)
 export(shorten_lineage)
 export(sink.reset)
 export(stacked_lin_plot)
-export(string2accnum)
 export(summ.DA)
 export(summ.DA.byLin)
 export(summ.GC)