Closed biozzq closed 3 years ago
Hi,
You can treat each validpair file as an independent replicate. For that you can create count.matrix_1 from validpair1 and matrix_2 from validpair2 using buildmatrix program separately. If you provide the replicates then dcHiC can utilize the intra-replicate variation present in your dataset. Concatenation is the next best option. Let us know how the result looks like and makes sense to you.
Dear all,
Because of low sequencing depths for some samples in my study, I have constructed another library for these samples and sequenced them to a high coverage. When preparing the input files to
dcHiC
, I'm not sure I'm doing the right thing. For these samples, I simply merged the validPairs not the allValidPairs by usingcat
, and then converted the merged file to sparse matrix/bed files by usingbuildmatrix
.Sincerely. Zheng zhuqing