TODO

[atusy]

Doc

Remove an argument not in use

qntmap/R/group_cluster.R

Line 29 in a56f24f

save4qm(x, 'grouped', saving, components = components)

Redundant back quotes

qntmap/R/find_centers.R

Line 3 in a56f24f

#' @param xmap an `qm_xmap` class object generated by `read_xmap()``

qntmap/R/find_centers.R

Line 4 in a56f24f

#' @param qnt an `qm_qnt` class object generated by `read_qnt()``

Upper case

qntmap/R/group_cluster.R

Line 1 in a56f24f

#' group clusters who share same prefix

qntmap/R/qntmap.R

Line 1 in a56f24f

#' interactively quantify X-ray maps

qntmap/R/quantify.R

Line 1 in a56f24f

#' quantify qualtitative mapping data

qntmap/R/read_cnd.R

Line 1 in a56f24f

#' read .cnd files

qntmap/R/read_qnt.R

Line 1 in a56f24f

#' compile quantitative data

qntmap/R/read_xmap.R

Line 1 in a56f24f

#' read X-ray map data

qntmap/R/summary.R

Line 2 in a56f24f

#' @title summary methods

Describe arguments: dir_map , RDS_cluster , qltmap

qntmap/R/quantify.R

Lines 125 to 140 in a56f24f

	qntmap_quantify <- function(
	wd = '.',
	dir_map,
	RDS_cluster,
	maps_x = NULL,
	maps_y = NULL,
	fine_phase = NULL,
	fine_th = 0.9,
	qnt = qnt_load(wd),
	qltmap = qltmap_load(dir_map),
	cluster = readRDS(RDS_cluster)
	) {
	.Deprecated(new = 'quantify')
	cd <- getwd(); on.exit(setwd(cd))
	quantify(xmap = qltmap, qnt = qnt, cluster = cluster, maps_x = maps_x, maps_y = maps_y, fine_phase = fine_phase, fine_th = fine_th)
	}

Improve consistency among documents

(Depracated) and (DEPRECATED) -> (DEPRECATED)

qntmap/R/find_centers.R

Line 108 in a56f24f

#' (Deprecated) Use find_centers

qntmap/R/read_xmap.R

Line 83 in a56f24f

#' (DEPRECATED) Use read_xmap

qntmap/R/cluster.R

Line 125 in a56f24f

#' (Deprecated) Use `cluster_xmap()`

qntmap/R/quantify.R

Line 125 in a56f24f

qntmap_quantify <- function(