KChen-lab/Monopogen

Issues

• Error during LDrefinement

  #61 opened 11 days ago by Thapeachydude
  1

• v1.5.0 Monopogen fails on example data in "Somatic SNV calling from scRNA-seq"

  #56 opened 15 days ago by briansha
  4

• cell_snv.mat.gz missing

  #59 opened 16 days ago by ariannadib
  8

• The error in Germline calling step

  #60 opened 19 days ago by zhangdong360
  3

• Different somatic calls across Monopogen v.1.0 and v1.6.0

  #58 opened 22 days ago by ypershad
  2

• Missing genotypes？

  #34 opened 4 months ago by wangjunyu-cumt
  7

• Tutorial Somatic Variant Calling Error for the cellScan step. Different output for different input to -t and -w? Potentially different reference file?

  #23 opened 18 days ago by hannahkimincompbio
  2

• Error in ld refinement on putative somatic SNVs

  #52 opened 18 days ago by zhangdong360
  3

• Issues for germline variant calling part from scRNA-seq

  #36 opened 18 days ago by lijinw
  3

• Run monopogen for more than 1 sample?

  #43 opened 18 days ago by ZhengJIN94
  2

• Lineage tracing

  #45 opened 18 days ago by SofiaFreiman
  1

• GermCalling Target Markers

  #48 opened 18 days ago by ArunaNannapaneni
  9

• Monopogen for mouse single cell sequence

  #22 opened 18 days ago by Lixinyoung
  1

• Cell by SNV matrix for germline

  #57 opened 18 days ago by yunguan-wang
  1

• Missing chr20.germline.vcf from germline calling step

  #55 opened 24 days ago by briansha
  8

• outputs of cellScan

  #53 opened a month ago by ariannadib
  3

• region "-o" specifies an unknown reference name

  #51 opened a month ago by ariannadib
  1

• Error in Germline SNV calling

  #54 opened 24 days ago by Teerapon789
  5

• Issues in the test file chr20.maester_scRNA.bam for somatic mutation calling

  #30 opened 6 months ago by alextidd
  6

• chr20.gp.vcf.gz: No such file or directory

  #50 opened 2 months ago by dipingxian431
  5

• Germline job never finish

  #47 opened 2 months ago by MetteBoge
  12

• number of snps before and after first out of imputation prior to phasing

  #49 opened 2 months ago by tbrunetti
  2

• fixed

  #46 opened 2 months ago by MetteBoge
  0

• samtools mpileup

  #9 opened 9 months ago by joonan30
  8

• about cell counts in somatic SNV output(chr*.putativeSNVs.csv)

  #35 opened 4 months ago by hanjun98
  2

• Monopogen’s test object

  #44 opened 3 months ago by dzxiaona
  1

• Bulk RNA seq

  #38 opened 3 months ago by ArunaNannapaneni
  1

• Can Monopogen use for calling variants in Malaria parasite single cell Data ?

  #39 opened 3 months ago by MJBioInfo
  3

• region-file

  #41 opened 3 months ago by swvanderlaan
  2

• Explanation .gl, .gp, .phased files

  #40 opened 4 months ago by rafaella-buzatu
  1

• About run data preprocess

  #17 opened 8 months ago by WeiZhaoLuck
  7

• Imprinted genes identification

  #37 opened 4 months ago by singcell
  2

• chrX

  #11 opened 5 months ago by lifan2022
  3

• About Error for the cellScan step during Somatic Variant Calling

  #25 opened 5 months ago by neuroniko
  2

• preprocess error

  #24 opened 7 months ago by zheng-sc
  2

• Installation error

  #29 opened 5 months ago by swvanderlaan
  1

• Error in Germline

  #31 opened 5 months ago by parth2608
  3

• Whether SmartSeq data can be used with the Somatic function？

  #33 opened 5 months ago by zuoyichen
  3

• Requires unsupported openssl version

  #32 opened 5 months ago by ArunaNannapaneni
  0

• Error on somatic calling

  #27 opened 6 months ago by solarkang21
  1

• Error on gemline calling

  #26 opened 7 months ago by carolwxm
  1

• nothing in the germline.vcf file

  #21 opened 8 months ago by hanliu0119
  2

• missing a space between flag and file name

  #20 opened 8 months ago by fulabgenomics
  3

• About ld refinement on putative somatic SNVs, spend a lot of time

  #18 opened 8 months ago by monoplasty
  3

• About run Somatic SNV calling from scRNA-seq

  #16 opened 8 months ago by monoplasty
  2

• About phased.vcf.gz generation during germline calling

  #15 opened 9 months ago by scg-dgist
  5

• Error about data preprocess

  #13 opened 9 months ago by TuoCai2000
  6

• UnicodeDecodeError: 'utf-8' codec can't decode byte 0x8b in position 1: invalid start byte

  #14 opened 9 months ago by moOsmanMD
  6

• About Somatic SNV calling from scRNA-seq

  #12 opened 9 months ago by scg-dgist
  2

• can't decode byte 0x8b in position 1: invalid start byte

  #10 opened 9 months ago by ayavuzcakir
  2