-
Hello,
I've been running MiXCR for a while without issue on paired end input data. I recently encountered an odd error when using exportAlignments. I assume this indicates something like a single…
-
Hi,
Thanks for this great software.
I have a request for a feature to include - could you consider add in file parser for end of line (EOL) characters? My project requests split original FASTQ f…
-
First of all, thank you so much for creating MiXCR. It's done a lot of great work for us. We even tested it and found that it performed much better against TRUST. Additionally, your documentation is…
-
Hello,
Can MiXCR identify novel clonotypes? Or it can only identify clonotypes from the database?
Thanks!
-
I have a library that has been sequenced on a HiSeq rapid mode (2 lanes/runs). When I ran it through the MiXCR analysis for each run individually, I got the same number of clones for each sample. Howe…
-
While running, mixcr prints some of the messages about progress to STDERR instead of STDOUT. I can submit a patch to fix this, but this seems to be done on purpose although I can't understand why.
-
Hi,
Is it possible to get the overlap sequences from the paired-end RNA seq reads?
I'm using this code to obtain the overlapped sequences/alignments. However, it is unsuccessful. I would lik…
-
Dear,
I ran MiXCR 2.1.5 like the following:
`mixcr align -s hsa -r alignmentReport.txt --save-description -OvParameters.geneFeatureToAlign=VTranscript mySeqFile.fasta alignments.vdjca`
-> 82 s…
-
During assembly, when using the default -OassemblingFeatures, only the CDR3 region is exported as Clonal sequence.
When using -OassemblingFeatures ="[FR3,CDR3,FR4]", the clone counts drop more than 1…
-
Sometimes certain alignment and assembly report fields are missing. For example, "Alignment failed because of low total score" appears for some samples or sequencing runs but not for others. I assume …