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vBestIdentityPercent value NaN #1828
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Hi, can you share the exact commands you used starting from analyze? |
The command gave NaN shows below java -Xmx15g -Xms15g -Djava.io.tmpdir=/tmp -jar /bioapp/mixcr.jar align \
-t 12 --species hsa -p kaligner2 -OallowPartialAlignments=false -OvParameters.geneFeatureToAlign=VGeneWithP \
--report sample.alignment.log \
sampe_1.clean.fq.gz \
sample_2.clean.fq.gz \
sample.alignment.vdjca -f
java -Xmx100g -Xms30g -Djava.io.tmpdir=/tmp -jar /bioapp/mixcr.jar assemble \
--write-alignments -f -t 12 \
sample.alignment.vdjca \
sample.alignment.clna
java -Xmx100g -Xms30g -Djava.io.tmpdir=/tmp -jar /bioapp/mixcr.jar assembleContigs \
-f -t 12 \
sample.alignment.clna \
sample.full.alignment.clns
java -Xmx100g -Xms30g -Djava.io.tmpdir=/tmp -jar /bioapp/mixcr.jar exportClones \
--chains IGH -f --preset full -vBestIdentityPercent -vIdentityPercents \
sample.full.alignment.clns \
sample_heavyChain_full.xls By the way, my MIXCR version is 3.0.13, I think. |
Can you please try the latest version and confirm the issue is still present? also what type of data is it, bulk RNAseq? |
It is bulk DNAseq data. It is weird to give a not |
with the latest version you can use the following command:
|
Thanks a lot |
Hi,
I am using MIXCR for some SHM calculations. One of my samples shows a clone with vBestIdentityPercent value
NaN
. Wondering how this happened. Is the value expected or not?best
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