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itGRN problem about exfinder HOT 2 CLOSED

changhangithub avatar changhangithub commented on July 18, 2024
itGRN problem

from exfinder.

Comments (2)

ChanghanGitHub avatar ChanghanGitHub commented on July 18, 2024

Hi Mingxuan,

The first warning "The following target genes have been ignored:..." means for some of the target genes, no corresponding ltGRNs were inferred by exFINDER. This may be due to: 1. these target genes are not recorded in the exFINDER-DB, or 2. no ligand was inferred that can connect these target genes (with the L-R-TF-T structure).

The second warning "Overlap found!" means some genes have two or more roles (ligand, receptor, TF, or target). You can fix this by running "fix_OverLap" function ( i.e., "exSigNet <- fix_OverLap(exSigNet)" ).

from exfinder.

LiangMingxuan00 avatar LiangMingxuan00 commented on July 18, 2024

Many thanks for your answer

Best,
Mingxuan

from exfinder.

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