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Hi @colindaven @sannareddyk @B1T0 @Colorstorm @BioNij
Wochenende ran well when we inputed cfdna fastq profiles containing human reads as well with other pathogenic reads.
We were interested in…
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Hi, it is a good work!
I hvae done the step1-4 sucessful, but what is the *WGS.FinaleMe.mincg7.mergerd.cov.37.bw. I can't see the file from where.
"ls ***WGS.FinaleMe.mincg7.merged.cov.b37.bw** …
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Hi, it seems `numpy` does not have `float` anymore (now it's included in `base`). I had a problem running:
```
$ svviz2 --ref ~/references/GRCh38/Homo_sapiens.GRCh38.dna.primary_assembly.fa.modifi…
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Currently, I have been using ichorCNA for cfDNA analysis in HCC. However, results of several patients showed that their tumor fraction equal to 0. Is there a theoretical threshold for ichorCNA detecti…
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Hello,
For some data sets, I occasionally met error error "unrecognized CIGAR operator" when run gemBS map.
The debug imformation is as follows:
Bisulfite Mapping...
2019-11-14 10:16:56,579 D…
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I'm looking at the new cfDNA methylation document put out by ONT https://community.nanoporetech.com/knowledge/know-how/cfDNA-methyl-profile and it has some figures on % methylation by read position.
…
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Command executed:
bcftools annotate --header-lines /Data/data/raja/cfdna/nextflow1/bin/syn3_header.txt LCR_FILTERED > FILTERED_hd.vcf
**java -jar -Xmx4g /Data/data/raja/cfdna/nextflow1/bin/snp…
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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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We have a user who tried to copy a directory on rhino to S3.
There were two files in the directory that had owner read permissions but no group read permissions (and this user is in the group but is…
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**Hello, it is great work.**
**However, I encontered error in the very first step following your tutorial.**
**The script I was using is shown below:**
java -Xmx20G -cp "target/FinaleMe-0.…