-
I would like to use `exportAlignments -p min` to save space and export time. But how do I add "readSequence" information that `-p full` provides with any [options]?
thanks!
-
Hi there
I'm gettign this error when running baldr:
ERROR: Missing input files. Please enter the compressed fastq.gz file/s. Please note the file names should end in ".fastq.gz". For paired end, the…
ibseq updated
5 years ago
-
`~/src/mixcr/mixcr assemble -p default_affine -r mixcr/$s.assemble.log -OassemblingFeatures=VDJRegion -OseparateByC=true -OqualityAggregationType=Average -OclusteringFilter.specificMutationProbability…
-
Trying to align single end rep-seq reads using following invocation and can't get past the 'No output file' error. I assume its looking for the paired read but this is not '-p RNA-seq' sequence but en…
-
Report file seems changed after upgrade the software.
How can we get back the No percentage of all chains?
like this,
TRA chains: 1 (0%)
TRB chains: 41947 (100%)
TRG chains: 1 (0%)
-
The -r option raises an exception for me in align and assemble:
Exception in thread "main" java.lang.RuntimeException: java.nio.file.NoSuchFileException: alignment_log.txt
at com.milaboratory.mixcr…
-
Hello,
I have a T-cell sample with shallow sequencing, after mixcr v2.0.4 carried on align, assemble, clone report steps with default setting, I got results of following in clones report:
Clone ID…
-
Is it possible for MIXCR to cluster alignment reads(output_file.vdjca) when exporting out?
Thanks.
-
Hi,
I am working on a RNAseq data generated from Ion Torrent Proton platform. The length of reads varies from 20ish to 200ish. For this data I got 0% TCR/IG alignment. What is the reasonable alignme…
-
[Jscore40.vdjca.txt](https://github.com/milaboratory/mixcr/files/1504647/Jscore40.vdjca.txt)
[Jscore5.vdjca.txt](https://github.com/milaboratory/mixcr/files/1504892/Jscore5.vdjca.txt)
hi, i am Yin…