DEGreport
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lpantano
Create a cromphensive report of DEG list coming from any analysis of RNAseq data
heads up `lasso2` is no longer archived currently have to install from source manually - https://cran.r-project.org/src/contrib/Archive/lasso2/
Hi, Trying to run degPatterns but run into an error I cannot solve. When running: clusters 15 Joining, by = "merge" Error: Problem with `summarise()` input `n_genes`. x could not...
Hello, I have cluster outputs from degPatterns where you can tell the expression pattern is the same/similar across sample groups. So this makes sense based on how the clustering is...
For reference, my experimental design is the same as in issue #45 So I run the following code: clusters1 15. I understand the clustering is based on DIANA. In the...
Dear Lorena, I am testing degPatterns() to identify gene clusters exhibiting particular patterns across samples of RNA seq data. I would like to validate the clusters identified by computing silhouette....
Hello, I used DegPatterns to cluster my genes which worked, but for upstream analysis I require the gene-gene distance matrix that was used to create these clusters. Is there any...
Hi Ipantano, I have more a theoretical question about your package than a software bug. I have ran the function degPatterns and have been using the resulting plot data for...
Hello again, Is there a way to only output one cluster plot if the number of the cluster is used as input? Let me know if this question doesn't make...
Hello, I have the following design matrix (all columns are characters): group time replicate ZN_D0_1 control 0 1 ZN_D0_2 control 0 2 ZN_D0_3 control 0 3 ZN_D1_1 control 1 1...
Hi, I tried to use degPatterns with consensusCluster = TRUE, cannot get a result but end fraction message. Does anyone know how to fix it? Thanks!
