I am new to DiffBind. I have tried working with your test data and I have seen the tutorial online.
I am facing some issues with DiffBind.

1. I am working on Rat data. when I enter my data, 'no genome detected' option comes up. I have seen that dba.blacklist does not have rat genome in background. How can I provide rat genome?
2. I am not getting any peaks using DEseq2 and EdgeR in my data.
3. Can we compare 4 different conditions in DiffBind? Is there an example available with you with more than 'Resistance' and 'Restrained' conditions?
4. For MACS2, do we need to provide specifically 'broad' peak or 'narrow' peak data as input for DiffBind?

Code should be placed in three backticks as shown below

```dba.analyze

test_data.analyzed <- dba.analyze(test_data.counted)

Output: Applying Blacklist/Greylists... No genome detected. Normalize DESeq2 with defaults... Analyzing... gene-wise dispersion estimates mean-dispersion relationship final dispersion estimates

I have also tried:

test_data.analyzed <- dba.analyze(test_data.counted, method=DBA_ALL_METHODS, bBlacklist = FALSE, bGreylist = FALSE)

Output: Normalize edgeR with defaults... Normalize DESeq2 with defaults... Analyzing... gene-wise dispersion estimates mean-dispersion relationship final dispersion estimates

For both the commands, I do not get any differential peaks.

dba.show(test_data.analyzed, bContrasts = T)

Factor Group Samples Group2 Samples2 DB.edgeR DB.DESeq2 1 Condition TREATMENT 2 CONTROL 2 0 0

Kindly help.