-
```
1) OpenSUSE 12.1 x64
2) Error in run.zinba(align = align, numProc = numProc, seq = seq, input =
input, :
File list /mnt/sf_G_DRIVE/FASTQ-DATA/CD4-DNASE/SRR097566_files/SRR097566.list does …
-
I just noticed that there is a difference between the counts of DNase seq as a technqiue and DNase as a epigenetic mark. I think those number should be identical. Is there something wrong in the impo…
-
```
1) OpenSUSE 12.1 x64
2) *** glibc detected *** /usr/lib64/R/bin/exec/R: double free or corruption
(out): 0x00007fff32499cb0 ***
======= Backtrace: =========
/lib64/libc.so.6(+0x74c06)[0x7f004fd7…
-
Do you have any tips on using FIMO for scanning? I'm doing de novo motif discovery on open chromatin, and I know msCentipede requires being a good number of true binding sites, but it's hard to know w…
-
```
1) OpenSUSE 12.1 x64
2) *** glibc detected *** /usr/lib64/R/bin/exec/R: double free or corruption
(out): 0x00007fff32499cb0 ***
======= Backtrace: =========
/lib64/libc.so.6(+0x74c06)[0x7f004fd7…
-
```
1) OpenSUSE 12.1 x64
2) *** glibc detected *** /usr/lib64/R/bin/exec/R: double free or corruption
(out): 0x00007fff32499cb0 ***
======= Backtrace: =========
/lib64/libc.so.6(+0x74c06)[0x7f004fd7…
-
I have noticed that there does not yet exist a schema for sequence features. I have been working on such a schema with @tdanford as part of the ADAM project:
https://github.com/bigdatagenomics/bdg-f…
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Many peak callers exist such as Hotspot, F-seq, and Macs2.
These results are ~.bed without strand information ("+" or "-").
But pyDNase scrpits need bed with strand information.
For example, dnase_av…
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Here are photos of each chromosome that I think would look good above the Chromosome 1,2,3,4,5 labels on the Select Gene page. I got the photos from here, inverted them so the backgrounds would be whi…
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For some sets of input sequences, the clustering step (handled by `run_consensus_clusering_using_wm.pl`) is failing without any warning -- only an empty output file is generated.
Here is an example i…