saeyslab/multinichenetr

Issues

• Process killed (out of memory)

  #88 opened a month ago by TessaGillett
  8

• ERROR in less than 3 samples (basic_analysis_steps_MISC_SACL.knit.md). ERROR: get_DE_info_sampleAgnostic

  #80 opened 2 months ago by tian6067
  4

• Lack of Robustness to Outliers

  #85 opened 22 days ago by DarioS
  7

• Difference in results between the step by step vignette and multi_nichenet_analysis

  #87 opened a month ago by APuchkina
  1

• Condition-specific cell types error at get_DE_info()

  #79 opened a month ago by chloebazin
  5

• Receiver cells in differential analysis

  #86 opened a month ago by Cacti-Jiang
  2

• Redundant Comparison Shown

  #84 opened 2 months ago by DarioS
  1

• x

  #83 opened 2 months ago by Dalhte
  1

• conditions written in contrasts_oi should be in the contrast column of contrast_tbl column!

  #82 opened 2 months ago by Dalhte
  1

• Problem with download

  #81 opened 2 months ago by Dalhte
  1

• combine_sender_receiver_de Duplicate Function Causes Error

  #74 opened 3 months ago by DarioS
  0

• Potential namespace conflict with the `summarise` function

  #73 opened 3 months ago by Huangy57
  0

• multi_nichenet_analysis Requires Writing All Combinations of Contrasts

  #78 opened 3 months ago by DarioS
  2

• Installation issue

  #77 opened 3 months ago by sidrahmaryam-cyber
  4

• Cell types abundances in prioritisation score

  #75 opened 3 months ago by EspressoKris
  1

• Older version

  #76 opened 3 months ago by shelby2919
  1

• Issue with group_prioritization_table being empty

  #71 opened 4 months ago by NeuralBind
  2

• 'combine_sender_receiver_de' function exists in nichenetr and multinichenetr

  #70 opened 4 months ago by avpatel18
  3

• Error in Interpretable bubble plots

  #72 opened 4 months ago by Chenium123
  8

• installation issue

  #69 opened 4 months ago by alexstu
  2

• Plotting the Ligand-Activity plot for a ligand of interest

  #53 opened 4 months ago by pdimitron
  3

• Running multinichenet for a single sampleID but 3 groupID

  #68 opened 4 months ago by ceciih
  1

• get_abundance_expression_info Slot Extraction is Unclear

  #65 opened 4 months ago by DarioS
  3

• Prioritization Weights Seem Arbitrary

  #67 opened 5 months ago by DarioS
  1

• min_cells Contradictory Default

  #66 opened 5 months ago by DarioS
  1

• Question senders_oi/receivers_oi and p_adj values

  #64 opened 5 months ago by chloebazin
  1

• Random effects covariates

  #63 opened 5 months ago by tomthomas3000
  1

• Question

  #62 opened 6 months ago by nicolebussola
  1

• Error in `dplyr::inner_join()` when running `multi_nichenet_analysis()`

  #61 opened 6 months ago by cgoneill
  4

• Change font size in make_ligand_activity_target_plot()

  #58 opened 6 months ago by AlexCHoppe
  1

• incorporating ATAC-seq data?

  #60 opened 6 months ago by wanghlv
  2

• Interpretation on Ligand Activity in Receptor Value

  #59 opened 6 months ago by VivianQM
  1

• perform_muscat_de_analysis errored

  #55 opened 6 months ago by vanessadisela
  3

• Error in muscat::pbDS

  #54 opened 6 months ago by emmmasu
  5

• Intercellular regulatory network systems view-graph_plot errored

  #56 opened 7 months ago by Chenium123
  1

• How to set "contrast_tbl" to reproduce Fig 3a

  #57 opened 8 months ago by haotian-zhuang
  2

• Error in dplyr::mutate() during "Combine all the information in prioritization tables"

  #39 opened 9 months ago by nvribeiro
  13

• circos plot

  #46 opened 9 months ago by inbarsh2
  1

• Can't install multinichenetr on apple silicon macOS

  #51 opened 9 months ago by kaarg2
  2

• Error when creating contrasts_oi_simplified when running multi_nichenet_analysis_combined

  #47 opened 9 months ago by Isabellvse
  1

• How do you determine which group the results are up-regulated in? why the circolplot incoherence with heatmap?

  #52 opened 9 months ago by SMU-TK-2022
  1

• How can I save the high resolution plots generated from multinichenetr with R code?

  #50 opened 9 months ago by kaarg2
  1

• Sample Prioritizations are there, but not getting group prioritizations

  #49 opened 9 months ago by pdimitron
  2

• How to visualize between sample differences in a group?

  #48 opened 9 months ago by dhairya02
  1

• inner_join Issue in "Intercellular regulatory network systems view"

  #43 opened 9 months ago by Mialn20
  3

• inner_join issue

  #40 opened 9 months ago by ckim-nkx
  2

• supporting evidence for the regulate potential of a ligand on a target

  #44 opened 10 months ago by zhenzhenyang-psu
  2

• Regarding Ligand-receptor DB

  #42 opened 10 months ago by lagom2728
  1

• Issue with abundance_expression_info, Error in `dplyr::pull()`: Caused by error: ! object 'ligand' not found

  #45 opened 10 months ago by 15013040212
  1

• no sample_id

  #41 opened a year ago by GGboy-Zzz
  4