deeptools/deepTools

Issues

• Typo/Bug in heatmapper.py script

  #1322 opened 2 months ago by AIqbal94
  2

• Cannot install deepTools with conda

  #1327 opened 3 months ago by sarahbowden
  9

• NameError: name 'getSmoothRange' is not defined

  #1332 opened 3 months ago by beyondpie
  1

• The documentation of alignmentSieve seems to be wrong.

  #1331 opened 3 months ago by ljw20180420
  0

• Natural sort of sample labels in `plotCoverage`

  #1330 opened 3 months ago by bounlu
  0

• Differences in DeepTools Heatmap Resolution Driven by Bed File

  #1329 opened 3 months ago by gwc32007
  0

• subset computeMatrix matrix file without computeMatrixOperations

  #1326 opened 3 months ago by BioLaoXu
  0

• Could not install deeptools by conda

  #1320 opened 4 months ago by Sum-low
  3

• bw files "No common chromosomes found" when it's from the same species and assemblies

  #1319 opened 4 months ago by ShannonTown
  2

• no

  #1323 opened 4 months ago by BenxiaHu
  0

• computeMatrix results in AttributeError: module 'numpy' has no attribute 'NAN'

  #1324 opened 4 months ago by yonniejon
  1

• Why enrichment of TSS and TES region are similar when using scale-region

  #1274 opened a year ago by haojin9288
  1

• computeMatrix on 2 regions with replicates

  #1318 opened 6 months ago by asmariyaz23
  0

• Does alignmentSieve not support single-ended sequencing data?

  #1317 opened 6 months ago by li1311139481
  0

• How to annotate a region in Heatmap?

  #1316 opened 6 months ago by li1311139481
  0

• Clustering regions in plotHeatmap

  #1315 opened 7 months ago by rikrdo89
  1

• Unexpected keyword argument 'pdd_inches'

  #1314 opened 7 months ago by yeeelwy
  0

• bamCoverage [multiBamCoverage]

  #1313 opened 8 months ago by z5ouyang
  1

• bamcoverage bedgraph sorting for SEACR

  #1312 opened 8 months ago by Rahel14350
  0

• Documentation clarification needed for `--normalizeUsing` option in `bamCoverage`

  #1311 opened 8 months ago by kalavattam
  0

• RNA-seq bam to bw

  #1310 opened 8 months ago by Tang-pro
  0

• ISSUES for scaling calculation

  #1309 opened 8 months ago by jiangshan529
  0

• "502 Proxy Error" when using bigwigCompare

  #1308 opened 9 months ago by Reb08
  1

• Using just the read ends in bamCoverage

  #1307 opened 9 months ago by gokceneraslan
  0

• black bars in plotheatmap

  #1305 opened 9 months ago by sunta3iouxos
  3

• What is the samtools flag used in bamPEFragment?

  #1306 opened 9 months ago by gerko0914
  0

• Unable to Install Deeptools via Conda: No Support Found for Python 3.10

  #1303 opened 9 months ago by akikuno
  1

• ERROR: Could not build wheels for deeptoolsintervals, py2bit, which is required to install pyproject.toml-based projects

  #1291 opened 9 months ago by Heather1999
  11

• plotHeatmap set multiple yMax values error

  #1278 opened 9 months ago by wddyzxxx
  1

• correctGCbias error

  #1279 opened 9 months ago by LavanyaRanganathan95
  2

• bamCoverage: error: argument --outFileName/-o: xxdir/sss/ddd/bugwig.bw file can't be opened for writing

  #1281 opened 9 months ago by Kiliankleemann
  1

• Can I directly ajdust the height ratio of the subplots when using several bed files?

  #1288 opened 9 months ago by Myrtle-bio
  1

• Why does alignmentSieve output bam files with no sequence / base quality?

  #1289 opened 9 months ago by chklee30
  1

• the conflict about the pheatmap and multibigwigsummary results

  #1296 opened 10 months ago by liuyu988
  1

• plotFingerprint bigwig support

  #1290 opened a year ago by annajbott
  1

• Heatmap plotting and interpretation

  #1299 opened 9 months ago by Krithika-Bhuvan
  1

• ValueError: could not broadcast input array from shape (11000,) into shape (4400,)

  #1300 opened 9 months ago by danli349
  2

• How to control the color range of the image

  #1298 opened 10 months ago by Krithika-Bhuvan
  2

• deeptools k-means clustering

  #1280 opened 10 months ago by suderiss
  1

• Metagene plot with cis and trans chip-seq signals

  #1293 opened 10 months ago by pterzian
  0

• plotHeatmap.py fails because direct matplotlib.tight_layout use was deprecated in matplotlib 3.6.0

  #1292 opened a year ago by eernst
  1

• deepTools-3.5.4 :: estimateScaleFactor :: typo

  #1286 opened a year ago by EricDeveaud
  1

• Effective genome size T2T-CHM13 reference genome

  #1284 opened a year ago by smsamin
  2

• A colormap named "rocket" is already registered.

  #1283 opened a year ago by wahaha233333
  1

• Heatmap gene deletion issues

  #1276 opened a year ago by feasiblee
  1

• Current documentation is missing information

  #1271 opened a year ago by aydemiro
  1

• AttributeError: module 'numpy' has no attribute 'float'.

  #1275 opened a year ago by jeffwhite81
  1

• Question about different information included in the input bed file would generate totally different Metagene Plot

  #1273 opened a year ago by lillianj97
  0

• Display the name of genes

  #1272 opened a year ago by nilanjana1996
  0

• issue with multibigwigsummary

  #1270 opened a year ago by liuyu988
  0