ratschlab/spladder

Issues

• e2_cov_region in intron_retention output

  #199 opened 3 months ago by perllb
  0

• Computation time

  #198 opened 3 months ago by Elisa89m
  0

• IndexError when running spladder

  #157 opened 3 years ago by swu13
  7

• local variable 'genes2' referenced before assignment

  #196 opened 6 months ago by ls233
  4

• Does SplAdder work with long-read RNA?

  #193 opened 5 months ago by jkmh2
  2

• Execution fails with --psi-min-reads set to specific value

  #190 opened a year ago by lea-lenhardtackovic
  1

• seaborn not found

  #191 opened 5 months ago by ramikheireddine
  3

• How to estimate PSI of a new input sample on pre-called events

  #194 opened 9 months ago by sckinta
  1

• how to speed up the merge step of the build utility?

  #195 opened 6 months ago by ls233
  0

• ValueError Keyword grid

  #192 opened 10 months ago by ramikheireddine
  1

• Index Error during build step

  #171 opened 2 years ago by kethselly
  2

• Is_annotated always 3 on negative strand

  #188 opened a year ago by perllb
  5

• is_annotated column interpretation in splAdder versions 3.x

  #168 opened 2 years ago by tbrunetti
  3

• Spladder viz issue: PDF dimensions out of allowed range

  #189 opened a year ago by balbachs
  0

• Index error in write.py for psi value

  #162 opened a year ago by lunazhaoxxx
  2

• Interpretation of the differential splicing testing results

  #187 opened a year ago by sneha100895
  0

• Naming of skipped exons in mutually exclusive events is based on exon length not genomic coordinates

  #186 opened a year ago by R-Najjar
  0

• Use on large cohorts

  #176 opened 2 years ago by andrepessoni
  6

• viz issue

  #185 opened 2 years ago by TracyKoubkovaYu
  0

• About Image output

  #183 opened 2 years ago by avrajit
  2

• test run mode - TypeError: Indexing elements must be in increasing order

  #182 opened 2 years ago by sergiosenci
  4

• gff on gtf

  #184 opened 2 years ago by ntsopoul
  1

• qmode collect step for large cohorts

  #180 opened 2 years ago by kate-stankiewicz
  4

• RuntimeWarning: invalid value encountered in subtract

  #179 opened 2 years ago by kate-stankiewicz
  2

• TypeError: expected str, bytes or os.PathLike object, not coo_matrix

  #178 opened 2 years ago by farshadf
  4

• TypeError: object of type 'Gene' has no len()

  #177 opened 2 years ago by MB571
  2

• ValueError: NaN, inf or invalid value detected in endog, estimation infeasible

  #172 opened 2 years ago by lisagrigoreva
  2

• build mode issue

  #174 opened 2 years ago by khksw0403
  4

• viz mode issue

  #173 opened 2 years ago by selmanurk
  1

• Test Mode ValueError

  #175 opened 2 years ago by JP971
  1

• at which stage can i select the confidence threshold?

  #170 opened 2 years ago by ArashDepp
  0

• llvmlite.binding' has no attribute 'get_host_cpu_name

  #169 opened 2 years ago by ArashDepp
  3

• How to incorprate public available spladder gff3 result into a new run?

  #159 opened 2 years ago by MeilingJinCOH
  2

• Spladder accuracy for samples with high multimappers

  #167 opened 2 years ago by tbrunetti
  2

• Different info between "test_results" and "gff3"

  #158 opened 2 years ago by minnie0121
  7

• Identify novel events with respect to annotation SplAdder v3.0.2

  #163 opened 2 years ago by pablommesas
  4

• Viz test not working

  #165 opened 2 years ago by spazm5
  3

• Error in event calling - "Inf" in hdf5

  #161 opened 2 years ago by deccagon
  1

• Spladder test stuck

  #160 opened 3 years ago by zyh4482
  2

• Running too slow!

  #164 opened 2 years ago by ifreeman6
  2

• Testing mode fails despite using the default merging strategy

  #166 opened 2 years ago by shepp-hub
  1

• UnboundLocalError: local variable 'gene_samples' referenced before assignment

  #155 opened 3 years ago by OnkarMulay
  17

• ValueError: The first guess on the deviance function returned a nan. This could be a boundary problem and should be reported.

  #156 opened 3 years ago by OnkarMulay
  0

• splADDER KeyError: 'gene_id'

  #154 opened 3 years ago by rvilloutreix
  6

• Index error for spladder build --event-types intron_retention

  #153 opened 3 years ago by wir963
  4

• NameError: name 'get_filename' is not defined

  #151 opened 3 years ago by wir963
  3

• IndexError during spladder test intron_retension

  #152 opened 3 years ago by paulojannig
  2

• alt_3prime events AssertionError

  #149 opened 3 years ago by paulojannig
  8

• AttributeError: 'Gene' object has no attribute 'symbol'

  #150 opened 3 years ago by wir963
  2

• Attribute error

  #148 opened 3 years ago by illarionovaanastasia
  3