milaboratory/mixcr

Issues

• FASTQ and BAM give discordant results

  #1691 opened 21 days ago by vincentwalter
  3

• Rhapsody BCR+TCR full length data input

  #1698 opened 9 days ago by albertop210
  2

• findAlleles get empty clone data

  #1697 opened 15 days ago by liu9756
  3

• Generating all all_contig_annotations.json to run enclone after MiXCR

  #1700 opened 9 days ago by JackYGhannam
  0

• Help with TCR-seq alignment rate

  #1695 opened 16 days ago by seoyeonoh12
  0

• The problem of mixcr exportPlots shmTrees

  #1686 opened 24 days ago by WZQ6
  1

• allVHitsWithScore allDHitsWithScore allJHitsWithScore allCHitsWithScore

  #1689 opened 21 days ago by 2061574124
  1

• The majority of results in 'clones_TR[A|B].tsv' are "region_not_covered"

  #1687 opened 22 days ago by ChoiJi-Hye
  1

• Preset for long-read RNAseq with cell barcode

  #1682 opened a month ago by Euchiz
  1

• How to perform MiXCR on my spatial TCR data

  #1684 opened a month ago by yuyuleung
  0

• Somatic Hypermutation Status of IGHV status

  #1672 opened a month ago by xmy1990
  2

• Question about filtering reads prior to Mixcr

  #1674 opened a month ago by SirKuikka
  1

• Error exportPlots shmTrees - Duplicate library: repseqio.v4.0_with_found_alleles:10090

  #1666 opened a month ago by pbpayal
  2

• transitioning from postanalysis to exportPlots

  #1667 opened a month ago by Januaryyiyue
  1

• postanalysis NullPointerException

  #1654 opened 2 months ago by Januaryyiyue
  9

• mixcr exportPlots giving error

  #1562 opened 2 months ago by LeilaKhajavi
  8

• Somatic hypermutation analysis

  #1656 opened 2 months ago by pbpayal
  1

• Analysis of single chain Fragment variable (scFv)

  #1658 opened 2 months ago by d-jch
  1

• Number of aligned reads distinct between preset rna-seq and generic-amplicon-with-umi

  #1634 opened 2 months ago by AntonellaGuo
  1

• For detection of somatic hypermutation (SHM) ?

  #1648 opened 2 months ago by xmy1990
  1

• RefineTagsAndSort

  #1646 opened 2 months ago by bshim181
  1

• TotalReads count not set

  #1633 opened 2 months ago by Januaryyiyue
  10

• UMI-based error correction

  #1635 opened 2 months ago by bshim181
  1

• Nanopore Data

  #1604 opened 2 months ago by bshim181
  4

• Generic-ont alignment problem

  #1597 opened 2 months ago by mszelest
  8

• Mixcr to VDJtools

  #1616 opened 3 months ago by pbpayal
  1

• UMI with Nanopore Data

  #1614 opened 3 months ago by bshim181
  1

• Issue with Extracting Light-Kappa Chains in Dog

  #1600 opened 3 months ago by MikolajKocikowski
  3

• Artificial gaps in reported amino acid sequences

  #1611 opened 3 months ago by pursellta
  2

• Artificial Diversity Correction

  #1608 opened 3 months ago by bshim181
  1

• How to use the MiXCR software to analyze incomplete rearrangements such as IGH-DJ and IGKV-Kde?

  #1601 opened 3 months ago by tongyuBGI
  1

• Unexpected behavior when running mixcr analyze from a script

  #1606 opened 3 months ago by kvegesan-stjude
  2

• Floating Alignment Boundaries

  #1603 opened 3 months ago by bshim181
  1

• Mapping MiXCR clones back to fastq reads

  #1592 opened 3 months ago by Januaryyiyue
  1

• No longer compatible with Immunarch?

  #1593 opened 3 months ago by MikolajKocikowski
  1

• takara-mouse-rna-bcr-smarter

  #1587 opened 4 months ago by pbpayal
  3

• MiXCR Default Library

  #1586 opened 4 months ago by bshim181
  1

• Difference in vs4.6 vs 4.3 for TCR data using TAKARA human v2 kit - 20 vs 16824 clonotzpe counts

  #1578 opened 4 months ago by Manishaa17993
  1

• MiXCR Built in Library

  #1553 opened 4 months ago by bshim181
  1

• Han et al 2014 preset

  #1557 opened 4 months ago by alexell22
  3

• Clone table fields missing

  #1571 opened 4 months ago by Januaryyiyue
  1

• Error while running command buildLibrary java.lang.IllegalArgumentException: Unknown symbol " "

  #1550 opened 4 months ago by silvia1234567890
  6

• Custom milab-human-rna-tcr-umi-race

  #1558 opened 4 months ago by alexell22
  5

• License error: AuthorizationError: License expired

  #1517 opened 4 months ago by jiepan1
  1

• Custom Reference error parsing fasta: Unknown letter '>'

  #1523 opened 5 months ago by pursellta
  1

• Java run issue

  #1516 opened 5 months ago by Gaut1993
  3

• Issue when running mixcr exportPlots shmTrees

  #1519 opened 5 months ago by laumonstre
  3

• I can't obtain the pa.json[.gz] file to create plots using exportPlots

  #1520 opened 5 months ago by DiegoDMaldonado
  1

• Error while running command exportClones: While adding VEndTrimmed error: Wrong position value

  #1510 opened 5 months ago by FreundLab-Michal
  2

• Need help with converting old codes to newer version

  #1505 opened 6 months ago by wwang86
  1