get_LRscores: Calculate the LRscore of each "expressed" ligand-receptor...
In Pinlyu3/LRLoop: Two-way communication between cells

Calculate the LRscore of each "expressed" ligand-receptor pair in each condition. Only run after running "PrepareBasics".

get_LRscores(
  lr_expr,
  conditions,
  value.use_from,
  value.use_to,
  scalar,
  LRscore_method,
  thresh_expr_from,
  thresh_expr_to,
  LRL_eachcondition,
  LRL_filter = "none",
  thresh_expr_cut = FALSE
)

`lr_expr`	A ligand-receptor network matrix with two columns "from" and "to".
`conditions`	A vector of conditions of interest
`value.use_from`	A numeric matrix with genes in rows and conditions in columns, selected as the ligand values to be used in the calculation of LRscores
`value.use_to`	A numeric matrix with genes in rows and conditions in columns, selected as the receptor values to be used in the calculation of LRscores
`scalar`	A number, plays the role of a scalar in the calculation of LRscores when the LRscore_method set to 'scsigr' or individual_scale'
`LRscore_method`	The method of calculating the LRscores, available options are 'mean', 'individual_scale', 'individual_scale_exp', 'product', 'bias_receptor' and 'scsigr'
`thresh_expr_from`	A numeric matrix of 0s and 1s with genes in rows and conditions in columns (with the same column names as value.use_from) that define whether each gene is expressed in each condition (0-NO, 1-YES) in the sender cells.
`thresh_expr_to`	A numeric matrix of 0s and 1s with genes in rows and conditions in columns (with the same column names as value.use_to) that define whether each gene is expressed in each condition (0-NO, 1-YES) in the receiver cells.
`LRL_eachcondition`	List of LRloop networks in each condition.
`LRL_filter`	"L1R1", "L2R2" or "none". "L1R1" ("L2R2"): The LR pairs are from ct1 (ct2) to ct2 (ct1) and apply the LRloop filter in each condition, that is, in each condition, an LRscore will be set to 0 if the LR pair does not form any LRloop in that conditon. "none": No LRloop filter applied.
`thresh_expr_cut`	TRUE or FALSE. If TRUE, the LRscore of ligand-receptor pairs for which either the ligand or the recepor is not expressed as defined in thresh_expr_from and thresh_expr_to, respectively, is set to 0. Default is FALSE.