get_LRL: Get the LRloop L1_R1-L2_R2 pairs
In Pinlyu3/LRLoop: Two-way communication between cells

Get the LRloop L1_R1-L2_R2 pairs

get_LRL(
  lr_expr_ct2_to_ct1,
  lr_expr_ct1_to_ct2,
  ligand_target_matrix_binary_ct2_to_ct1,
  ligand_target_matrix_binary_ct1_to_ct2,
  receptor_target_matrix_binary_ct2_to_ct1,
  receptor_target_matrix_binary_ct1_to_ct2
)

`lr_expr_ct2_to_ct1`	A ligand-receptor network list resulted from the function "get_expr_lr", signaling from ct2 to ct1
`lr_expr_ct1_to_ct2`	A ligand-receptor network list resulted from the function "get_expr_lr", signaling from ct1 to ct2
`ligand_target_matrix_binary_ct2_to_ct1`	A matrix of 0s and 1s with target genes in rows and ligands in columns, indicates whether each target gene is identified as a target of each ligand, signaling to/in ct1
`ligand_target_matrix_binary_ct1_to_ct2`	A matrix of 0s and 1s with target genes in rows and ligands in columns, indicates whether each target gene is identified as a target of each ligand, signaling to/in ct2
`receptor_target_matrix_binary_ct2_to_ct1`	A matrix of 0s and 1s with target genes in rows and receptors in columns, indicates whether each target gene is identified as a target of each receptor, signaling to/in ct1
`receptor_target_matrix_binary_ct1_to_ct2`	A matrix of 0s and 1s with target genes in rows and receptors in columns, indicates whether each target gene is identified as a target of each receptor, signaling to/in ct2

myLRL: A list of two elements: myLRL$'L1->L2_L2->L1': LRloop network with L1->L2 and L2->L1 (L2 is a target of L1 and L1 is a target of L2) myLRL$'R1->L2_R2->L1': LRloop network with R1->L2 and R2->L1 (L2 is a target of R1 and L1 is a target of R2) myLRL$'eachcondition': LRLoop networks in each condition myLRL$'withdelay': A list of three elements: myLRL$'withdelay'$'L1->L2_L2->L1': LRloop network with L1->L2 and L2->L1 where L1-R1 and L2-R2 are not necessarily expressed in the same condition myLRL$'withdelay'$'R1->L2_R2->L1': LRloop network with R1->L2 and R2->L1 where L1-R1 and L2-R2 are not necessarily expressed in the same condition myLRL$'withdelay'$'eachcondition': Same as myLRL$'eachcondition'

Pinlyu3/LRLoop documentation built on Jan. 7, 2022, 3:04 p.m.