Hello,
would you like to tell me that hicConvertFormat can convert HiC-Pro iced matrix to cool or other formats?
hicConvertFormat -m fastq_100000_iced.matrix --bedFileHicpro ${bed} --resolutions 100000 --inputFormat hicpro --outputFormat cool -o fastq_100000_iced.cool
Traceback (most recent call last):
File "/data/anaconda3/envs/Hicexpoler/bin/hicConvertFormat", line 7, in
main()
File "/data/anaconda3/envs/Hicexpoler/lib/python3.7/site-packages/hicexplorer/hicConvertFormat.py", line 165, in main
distance_counts, correction_factors = matrixFileHandlerInput.load()
File "/data/anaconda3/envs/Hicexpoler/lib/python3.7/site-packages/hicmatrix/lib/matrixFileHandler.py", line 49, in load
return self.matrixFile.load()
File "/data/anaconda3/envs/Hicexpoler/lib/python3.7/site-packages/hicmatrix/lib/hicpro.py", line 33, in load
matrix = csr_matrix((data, (instances, features)), shape=(shape, shape))
File "/data/anaconda3/envs/Hicexpoler/lib/python3.7/site-packages/scipy/sparse/compressed.py", line 55, in init
dtype=dtype))
File "/data/anaconda3/envs/Hicexpoler/lib/python3.7/site-packages/scipy/sparse/coo.py", line 196, in init
self._check()
File "/data/anaconda3/envs/Hicexpoler/lib/python3.7/site-packages/scipy/sparse/coo.py", line 287, in _check
raise ValueError('negative row index found')
ValueError: negative row index found
deeptools
