aertslab/SCENIC

Issues

• Can this be used for bulk-tissue data?

  #467 opened a month ago by guandailu
  0

• Error in runGenie

  #464 opened 2 months ago by arao0912
  0

• Error Running runGenie3 in R

  #441 opened 8 months ago by DomenicoSkyWalker89
  3

• Bioconductor version

  #459 opened 4 months ago by flde
  2

• Could not initialize SCENIC

  #446 opened 8 months ago by synatkeamsk
  1

• shiny::runApp NOT FOUND

  #455 opened 5 months ago by TZUwang
  1

• initializeScenic(org="hgnc", dbDir="cisTarget_databases", nCores=1)

  #461 opened 4 months ago by YSYL-FSH
  0

• Error message during running runSCENIC_3_scoreCells()

  #439 opened 9 months ago by jiuquzjw
  6

• Error in running runSCENIC_3_scoreCells() and AUCell_buildRankings() functions.

  #434 opened 10 months ago by DiracZhu1998
  3

• Error in file(con, "w") : all connections are in use

  #453 opened 6 months ago by TZUwang
  2

• No questions here, please! runSCENIC_3_scoreCells :Error in signif(trhAssignment, 3)

  #454 opened 6 months ago by ManarHashemTaha
  0

• runSCENIC_3_scoreCells() error

  #425 opened a year ago by alisyedraza1
  3

• error in plot_eRegulon function for downstream analysis

  #431 opened 10 months ago by alirosen
  0

• could not find function "AUCell_createViewerApp"

  #448 opened 7 months ago by Eunice0519
  2

• Installation Error

  #451 opened 7 months ago by parkjooyoung99
  1

• Scenic on HPC

  #445 opened 8 months ago by Sogand65
  1

• Running GRNBoost as a batch job

  #449 opened 7 months ago by MehvesOzel
  0

• what is the difference between "motifAnnotations" and "motifAnnotations_hgnc_v9" , and what impact will it have on the results?

  #447 opened 8 months ago by Chenchen3Chen
  0

• Details about plot SCENIC results with cytoscape

  #443 opened 9 months ago by DiracZhu1998
  1

• Mis-labelled motifs - SCENIC+

  #442 opened 9 months ago by JaanaB1
  1

• Error in runSCENIC_3_scoreCells

  #400 opened a year ago by AritaZ-hang
  3

• Comparison between two SCENIC networks

  #419 opened a year ago by miguecass
  1

• run_SCENIC_2_createRegulons(): Warning

  #438 opened 10 months ago by btsanketh
  0

• RSS top eRegulon jaccard heatmap

  #436 opened 10 months ago by alirosen
  0

• Warning in .AUCell_calcAUC(geneSets = geneSets, rankings = rankings, nCores = nCores,

  #429 opened a year ago by rraky
  0

• scenicOptions <- runSCENIC_2_createRegulons(scenicOptions, coexMethod=c("top5perTarget")) #** Only for toy run!!

  #428 opened a year ago by kakaisi
  0

• runSCENIC_3_scoreCells error

  #427 opened a year ago by alisyedraza1
  0

• TF dropout when running runSCENIC_2_createRegulons(scenicOptions)

  #424 opened a year ago by rmauron
  0

• No questions here, please!

  #423 opened a year ago by alisyedraza1
  1

• could not find function "calcRSS"

  #374 opened 2 years ago by chenx9
  7

• RcisTarget question

  #397 opened a year ago by zhangjiahao1234
  1

• pySCENIC cannot reproduce AUCell + tSNE projection from a tutorial

  #388 opened 2 years ago by ninhleba
  1

• exportsForArboreto input matrix log transformed or not

  #418 opened a year ago by iichelhadi
  0

• These errors seem to be related to the R version...

  #416 opened a year ago by jwg054000
  0

• ✖ Column `features` doesn't exist.

  #394 opened 2 years ago by hemantgujar
  2

• Please reopen "Problem with initializeScenic() #168"

  #379 opened 2 years ago by huhayahoo
  2

• p-value of regulon activity calculation

  #409 opened a year ago by wingkyBs
  0

• Error in matrix(data = 0L, nrow = mat@Dim[1], ncol = mat@Dim[2])

  #404 opened a year ago by amini-sahand
  0

• How to apply SCENIC to zebrafish except for human,mouse and fly at the initializeScenic step?

  #371 opened 2 years ago by rlawltn9718
  1

• Installation issue because of 'arrow' package

  #401 opened a year ago by abspangler13
  0

• The clustering was not obvious.

  #399 opened a year ago by CHNLMENG
  0

• Installation error

  #396 opened a year ago by Jokendo-collab
  0

• Error in match.arg(method) : 'arg' must be of length 1 when running runSCENIC_2_createRegulons

  #389 opened 2 years ago by trucnguyen89
  0

• runSCENIC_3_scoreCells errors: Not enough regulons with at least 10 genes.

  #392 opened 2 years ago by sanderslhc
  0

• Error in setting scenicOptions, what should I do?

  #391 opened 2 years ago by liuhy86
  0

• Error in asMethod(object) : Cholmod error 'problem too large' at file ../Core/cholmod_dense.c, line 102 Calls: as.matrix -> as.matrix.Matrix -> as -> asMethod

  #385 opened 2 years ago by ekinsnmz
  0

• reduce number of top regulons per cell type

  #383 opened 2 years ago by azwainCC
  0

• hg19-500bp-upstream-7species.mc9nr.feather file is missing in cisTarget database

  #367 opened 2 years ago by zhouxw27
  0

• AUC scores calulation

  #368 opened 2 years ago by xiebb7
  0

• Not able run load databases getting error

  #366 opened 2 years ago by luckysardar
  0