zjx boy

Hi, para `--tag-pattern` Can it be used for 3'RACE?

`Does 3'RACE mean that your data contains 3' end of the C gene?` You can think of it this way. In other words, I want to get rid of the...

Hi, Let me make it clear that this is SE data `mixcr align -s human --tag-pattern "^GTAAAA(R1:*) \ ^GTGAGTCGTATTA(R2:*)" -t 16 -f -OminSumScore=200 -OsaveOriginalReads=true input.fastq output_align.vdjca` But it doesn't work

Thank you very much. It's working now

Thank you anyway, but my problem is still unsolved. How to solve it @ivirshup ``` OSError: Unable to create link (name already exists) Above error raised while writing key 'full_name'...

Hi, Thank you for your reply MiXCR v3.0.13 ``` Output1: top record GATGTAAAACGACGGCCAGTATTCTCTGGCTCCAAGTCTGGCACCTCAGCCTCCCTGGCCATCAGTGGGCTCCAGTCTGAGGATGAGGCTGATTATTACTGTGCAGCATGGGATGACAGCCTGAATGGTCCGGTATTCGGCGGAGGGACCAAGCTCACCGTCCTAGCCCTATAGTGAGTCGTATTAA output2: top record GGGATGTAAAACGGGATGTAAAACGACGGCCAGTATTCTCTGGCTCCAAGTCTGGCACCTCAGCCTCCCTGGCCATCAGTGGGCTCCAGTCTGAGGATGAGGCTGATTATTACTGTGCAGCATGGGATGACAGCCTGAATGGTCCGGTATTCGGCGGAGGGACCAAGCTCACCGTCCTAGCCCTATAGTGAGTCGTATTAA ``` commands ``` filename=file1.fastq java -Xmx4g -Xms3g -jar D:\mixcr-3.0.13\mixcr.jar align -s human -t...

Hi, Thank you for your reply ``` Output1: top record GGGATCCCTGAGCGATTCTCTGGCTCCAAGTCTGGCACCTCAGCCTCCCTGGCCATCAGTGGGCTCCAGTCTGAGGATGAGGCTGATTATTACTGTGCAGCATGGGATGACAGCCTGAATGGTCCGGTATTCGGCGGAGGGACCAAGCTCACCGTCCTAGCCNAG Output2: top record GGATCGGGATCCCTGAGCNATTCTCTGGCTCCAAGTCTGGCACCTCAGCCTCCCTGGCCATCAGTGGGCTCCAGTCTGAGGATGAGGCTGATTATTACTGTGCAGCATGGGATGACAGCCTGAATGGTCCGGTATTCGGCGGAGGGACCAAGCTCACCGTCCTAGCC ``` commands ``` filename=file1 mixcr align -s human --tag-pattern "^GTAAAACGACGGCCAGT(R1:*)CCCTATAGTGAGTCGTATTA" -t 16 --library imgt.201946-3.sv6 -OminSumScore=200...

Hi, Now I have got part of the original data, I believe it can help you, how should I give it to you? ``` Output1: top record ATTCTCTGGCTCCAAGTCTGGCACCTCAGCCTCCCTGGCCATCAGTGGGCTCCAGTCTGAGGATGAGGCTGATTATTACTGTGCAGCATGGGATGACAGCCTGAATGGTCCGGTATTCGGCGGAGGGACCAAGCTCACCGTCCTAGC Output2: top...

`-OalignedRegionsOnly=true` Hi, I've fixed the problem, but can you tell me why? Why does it have this parameter Thank you very much for your help

`CAGTGGATCCCTGAGCGATTCTCTGGCTCCAAGTCTGGCACCTCAGCCTCCCTGGCCATCAGTGGGCTCCAGTCTGAGGATGAGGCTGATTATTACTGTGCAGCATGGGATGACAGCCTGAATGGTCCGGTATTCGGCGGAGGGACCAAGCTCACCGTCCTAG` Can you tell me where this `CAGTGGATCCCTGAGCG` came from, I didn't find it in the original data