SchulzLab/TEPIC

Issues

• TypeError in annotateTSS.py when using GTF

  #37 opened 2 years ago by cardonaaaa
  9

• The motif length files have wrong indices

  #36 opened 3 years ago by moritzschaefer
  3

• TRAP runs forever for merged-human and -vertebrates PSEMs

  #35 opened 3 years ago by moritzschaefer
  9

• Implement error-logger throughout the project

  #17 opened 4 years ago by Xethic
  0

• Error not reported with subfolders in --outDir param from INVOKE.R

  #33 opened 4 years ago by xpastor
  1

• Decay scaled affinities for DYNAMITE analysis

  #32 opened 4 years ago by juhomon
  2

• Gene scores from TEPIC differ depending on Python version

  #31 opened 5 years ago by JLGentry
  2

• Testcases with "-f example_annotation.gtf" fail

  #29 opened 5 years ago by JulianRein
  6

• Question: -b .bed file last column = peak-intensities?

  #30 opened 5 years ago by JulianRein
  1

• Define separate moduls for Hi-C data and functional epigenetic annotations

  #4 opened 6 years ago by Xethic
  4

• Scripts/computeMeanRatioTFAffinities.py

  #27 opened 6 years ago by HeyLifeHD
  5

• Error during gene annotation

  #26 opened 6 years ago by HeyLifeHD
  11

• -r option causing TEPIC.sh to crash

  #25 opened 7 years ago by CRoberto1926
  2

• computeMeanRatioTFAffinities is not Python3.x compliant

  #24 opened 7 years ago
  2

• TEPIC.sh prefix wrong

  #23 opened 7 years ago
  1

• runDYNAMITE.sh parallel processes

  #22 opened 7 years ago
  3

• runDYNAMITE.sh fails on existing folders

  #21 opened 7 years ago
  1

• integrateData.py failing to match geneIDs

  #20 opened 7 years ago by LRizzardi1
  3

• Can't locate elastic net model source code

  #16 opened 7 years ago by Prayforhanluo
  2

• Implement/Include peak calling algorithm

  #2 opened 7 years ago by Xethic
  2

• Cleanup incomplete

  #15 opened 7 years ago
  1

• Normalization of Hi-C matrices

  #7 opened 7 years ago by Xethic
  0

• Chromosome names

  #12 opened 7 years ago by DoaneAS
  3

• improve usability for TEPIC

  #13 opened 8 years ago by SchulzLab
  2

• Setup procedure

  #11 opened 8 years ago
  0

• Translate the source code from Python into C++

  #6 opened 8 years ago by Xethic
  4

• Create a wiki covering the basic topics

  #8 opened 8 years ago by Xethic
  1

• Incorporate peak calling results into kernel density function

  #3 opened 8 years ago by Xethic
  1

• Test new Module with real HI-C data

  #5 opened 8 years ago by Xethic
  2

• Create Makefile or CMake files

  #9 opened 8 years ago by Xethic
  1

• Include EIGEN Math library

  #10 opened 8 years ago by Xethic
  1

• Implement HI-C matrix parser

  #1 opened 8 years ago by Xethic
  2