Murali-group/Beeline

Issues

• Not able to run GENIE3 and GRNBOOST2

  #92 opened a year ago by Aishwarya-Girish
  8

• No general command to run SINGE across different OS

  #111 opened 2 months ago by kevchen03
  0

• Algorithm SINGE fails to run on Windows - Unterminated quoted string

  #109 opened 3 months ago by yutuyt01
  1

• False success messages posted after erroneous execution of docker commands in initialize.sh

  #75 opened 3 months ago by blessyantony9
  0

• Dockerfile compatibility issues with various algorithms, failing to build

  #105 opened 3 months ago by yutuyt01
  0

• BEELINE Installation Failure on Windows

  #104 opened 3 months ago by kevchen03
  2

• Unable to build and run docker containers

  #99 opened 5 months ago by code-bele
  0

• Download single cell datasets from different portals

  #94 opened 6 months ago by yiqisu
  1

• where is the tfs+500 and tfs+1000 datasets?

  #98 opened 6 months ago by prsigma
  2

• RankedEdges.csv file missing

  #97 opened a year ago by Aishwarya-Girish
  1

• PIDC method error and not generating any outputs [ERROR: LoadError: MethodError: no method matching setindex_shape_check(::Int64, ::Int64)]

  #93 opened a year ago by elhaam
  4

• docker image

  #54 opened 3 years ago by emre-99
  2

• Terminal/system halt when running "python BLRunner.py --config config-files/config.yaml" in the BEELINE conda environment

  #66 opened a year ago by shachafl
  10

• Reduce Disk Space for ExpressionData.csv Copies

  #91 opened a year ago by ktakers
  0

• Question about BEELINE PseudoTime.csv file format in BEELINE-data?

  #90 opened 2 years ago by gangcai
  2

• Add support for running BEELINE on multiple datasets specified implicitly

  #85 opened 2 years ago by tmmurali
  0

• Update documentation for BLEvaluator.py

  #84 opened 2 years ago by packers12345
  0

• BLRunner stuck on "OSError: Timed out trying to connect to 'inproc://172.17.0.2/10/1'" while running arboreto

  #48 opened 4 years ago by Oakento
  2

• Implement GRN visualization for evaluated algorithms

  #77 opened 2 years ago by ktakers
  1

• Erroneous message printed during initialization of Beeline

  #78 opened 2 years ago by blessyantony9
  1

• Upload experimental scRNA-Seq configuration files to Zenodo

  #76 opened 2 years ago by ktakers
  0

• BLPlotter center curated overview plot headers

  #71 opened 2 years ago by ktakers
  1

• Add legend to BLPlotter curated overview plots

  #72 opened 2 years ago by ktakers
  1

• Correct BLPlotter cell text in curated overview plot

  #73 opened 2 years ago by ktakers
  1

• Allow metrics to be selected for curated overview plots in BLPlotter

  #74 opened 2 years ago by ktakers
  0

• Make BEELINE installable through a Docker image

  #68 opened 2 years ago by tmmurali
  1

• Docker image for BEELINE with quickstart config

  #69 opened 2 years ago by blessyantony9
  0

• BLPlot

  #64 opened 2 years ago by michavol
  2

• Some problem of reproducing Fig.5 results

  #67 opened 2 years ago by JaneJiayiDong
  1

• Fail to reproduce Fig.5 results for human data

  #65 opened 2 years ago by jonathan-f
  4

• Errors when running initialize.sh

  #63 opened 3 years ago by semrau
  2

• SCNS ranked edges

  #61 opened 3 years ago by TiamHeydari
  2

• Fail to run the code

  #60 opened 3 years ago by yarkable
  1

• Test multiple parameters for the same method?

  #59 opened 3 years ago by ekernf01
  2

• How to compute the variance of genes using 'gam'.

  #58 opened 3 years ago by mahp-scut
  2

• curated datasets

  #52 opened 3 years ago by lila167
  8

• Nan value in PIDC results

  #56 opened 3 years ago by WWXkenmo
  2

• ground truth for example dataset

  #57 opened 3 years ago by xPandasx
  0

• adding new files

  #55 opened 3 years ago by xPandasx
  1

• Running without trueEdges (refNetwork.csv)

  #53 opened 3 years ago by doncarlos999
  2

• Issues with Beeline on Fedora 27

  #51 opened 3 years ago by niclaspopp
  4

• Data availability from paper

  #49 opened 4 years ago by calebclayreagor
  1

• Not able to run SCRIBE

  #45 opened 4 years ago by Zengggg
  4

• Use Docker hub image for algorithms, instead of building from Dockerfile

  #47 opened 4 years ago by adyprat
  0

• Not able to run GENIE3 and GRNBOOST2

  #46 opened 4 years ago by Zengggg
  3

• Not able to run some algorithms

  #44 opened 4 years ago by Zengggg
  3

• Lacking of "Type" in ground truth network

  #43 opened 4 years ago by Hsu-Che-Wei
  3

• Not able to run example data with most of the algorithm

  #42 opened 4 years ago by Hsu-Che-Wei
  5

• SCODE Docker container failing to build

  #40 opened 4 years ago by ibebio
  5

• An issue of Beeline/Algorithms/SCRIBE/runScribe.R

  #39 opened 4 years ago by AprilYuge
  4