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Hi,
When I did run my analysis with 4C-ker and tryed to upload my data to the UCSC genome browser the genome browser claimed that my bed file end position to some chromosomes were bigger than the en…
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I am presently engaged in studying the genome of Dalbergia, commonly known as Indian rosewood. Regrettably, I currently lack RNA-Seq data or protein files pertinent to this genome. Nonetheless, I ha…
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From igv-help group...
Hi,
We are trying to visualize bams generated by minimap2, run as part of the dipcall pipeline (https://github.com/lh3/dipcall), for the Genome in a Bottle HG002 Q100 T2T a…
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Hi,
Thanks for the methylation analysis pipeline.
I was testing a human WGBS data with msPIPE, and I used UCSC hg38 for reference. When running with run_MethylSeekR.pl, I got the following error…
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Hello,
I have used the following config file:
```
[general]
chrLenFile = /media/prodriguez/disk1/Databases/genomes/Hsapiens/hg19/seq/chromosomes/hg19.fa.fai
window = 0
ploidy = 2,3
outputDi…
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## Short description of the problem
Dear Devs,
As far as I understand the 'associated groups' are decided before the enrichment analysis by the function `get_enriched_groups`. This function calc…
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User will be able to submit an input form with multiple genes. The correlation analyzer will conduct analysis ONLY among the input genes, ignoring any sort of correlation analysis with the complement …
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```
$ gatk --version
The Genome Analysis Toolkit (GATK) v1.0-SNAPSHOT
HTSJDK Version: 2.24.0
Picard Version: 2.25.0
```
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Looks like some intermediate directories were added.
In bwa.kit/run-gen-ref, url38 currently points to (for 0.7.15):
`ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCA_000001405.15_GRCh38/seqs_for_alignm…
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Hi Toshiyuki,
Congrats on developing this tool! I have a question on potential application of this gene cluster analysis:
I have RenSeq contigs and gene models. I would like to map them to a re…