perslab/CELLEX

Issues

• np.float needs to be changed float due to deprecation in Numpy

  #38 opened 3 months ago by JordanWean
  3

• [FEATURE REQUEST]: Work with large datasets

  #36 opened 4 months ago by brianlamx
  1

• [BUG]: eso.compute error.

  #37 opened 5 months ago by myylee
  3

• gene_profile plot x-axis labels are offset and sometimes missing

  #1 opened a year ago by tstannius
  2

• Are hdf5 files produced by CELLEX compatible with R?

  #2 opened a year ago by tstannius
  1

• [BUG]:Error running eso.compute

  #33 opened a year ago by andrewjkwok
  2

• [BUG]: Operands could not be broadcast together with shapes (15831,12) (15831,15830,13)

  #34 opened 2 years ago by LIZW2019
  3

• Load input data as sparse matrix

  #32 opened 2 years ago by DaianeH
  2

• [BUG]: Error saving summary data

  #31 opened 2 years ago by dah77
  3

• Metadata_class use

  #30 opened 3 years ago by andreanuzzo
  6

• [BUG]: MissingOutputException in line 200 of /home/wbone/CELLECT/cellect-ldsc.snakefile:

  #28 opened 4 years ago by wpbone06
  0

• gene mapping function: from symbol to ensembl

  #26 opened 4 years ago by pascaltimshel
  3

• Improve mapping documentation

  #20 opened 4 years ago by tstannius
  3

• eso.results[“esmu”] data.frame lacks index column name

  #27 opened 4 years ago by JonThom
  1

• parse_input does not detect invalid metadata value types

  #24 opened 4 years ago by rrydbirk
  5

• IndexError: tuple index out of range

  #25 opened 4 years ago by rrydbirk
  1

• Warn if negative gene expression values

  #23 opened 4 years ago by pascaltimshel
  0

• Additional methods for gene filtering

  #22 opened 4 years ago by pascaltimshel
  0

• Make tutorial for how to import data from H5ad/loom(/Seurat)

  #21 opened 4 years ago by pascaltimshel
  0

• Memory usage needs to be optimized

  #14 opened 5 years ago by liubovpashkova
  2

• Syntax Error in det.py file

  #18 opened 4 years ago by vidalarroyo
  12

• Update parameter name in CELLEX wiki

  #19 opened 4 years ago by JonThom
  1

• .txt.gz files for "mapping"-functions are not found

  #17 opened 5 years ago by bengnielsen
  1

• Reading in data with pandas in a server setting is slow. How can I speed this up?

  #16 opened 5 years ago by DaianeH
  4

• Can not generate n_es_gene plot

  #12 opened 5 years ago by liubovpashkova
  0

• CELLEX crashes if duplicated cell_ids

  #8 opened 5 years ago by pascaltimshel
  2

• New functionality: implement geneset enrichment test

  #11 opened 5 years ago by pascaltimshel
  0

• Error in READ.ME

  #10 opened 5 years ago by liubovpashkova
  1

• quick start tutorial: AttributeError: 'ESObject' object has no attribute 'save'

  #7 opened 5 years ago by JonThom
  3

• mapping crashes due to FileNotFoundError

  #9 opened 5 years ago by tstannius
  1

• quick start tutorial: bug when importing cellex module

  #5 opened 5 years ago by JonThom
  2

• List requirements.txt in README

  #4 opened 5 years ago by JonThom
  2

• add R scripts for plotting ES object

  #3 opened 5 years ago by pascaltimshel
  0