More posts like this
-
Correct format for Hi-C matrix before converting to BEDPE
written by desptsp 0I am working with interchromosomal Hi-C interaction data and need to extract a matrix from a .hic file using Juicer Tools (v2.13.06). My goal is …
-
valid pairs to .hic
written by GK1610 12I have over 1Billion valid pairs from one cell type and 1 Billion from another cell type. I want to run differential loops and TADs …
-
How to convert a HG19 Hi-C hic file to HG38?
written by Ian 614Hi, I have a Hi-C hic file associated with the HG19 genome. How can I convert it to HG38? I have looked at Juicer Tools …
-
HiC matrix in .txt format to .h5
written by Oleczkaff 0I would like to know how can I convert my HiC contact matrices from .txt format to .h5.
-
coo2cmap
written by Oleczkaff 0I am trying to convert .txt files of my sparse matrix into .cmap format. How should I indicate xlabel of my intrachromosomal matrix in my …
-
Hi-C merged files
written by Oleczkaff 0I have downloaded .hic files from a repisotry, which gives me one merged .hic file of two or more replicates of the same sample. Now, …
-
Store a scRNA-seq ~gene expression "matrix.txt" as a "matrix.mtx" in R
written by choijamtsm 7Hello everyone! I new here. Actually I downloaded a huge big scRNA-seq .txt file from paper. And I want to analyze this seq data with …
-
.hic to .cool
written by c.chakraborty 18Hi everyone, Are there tools to convert format to transform `.hic` files to `.cool` or `.h5` files in R? Thanks in advance, Chai
-
Convert NCBI SRA data to gene expression data
written by Eric Wang 7I have downloaded some SRA data from NCBI(GEO)? I converted SRA data into fastq format. I want to know how to convert fastq format to …
-
How to build an NJ tree with an IBS distance matrix computed by PLINK?
written by yancheer 0I have got an IBS (identity by state) distance matrix (in .mibs format with its corresponding IDs file) computed by PLINK from genomic SNPs of …