KChen-lab Monopogen issues

KChen-lab / Monopogen

SNV calling from single cell sequencing

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issues

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How to set up the preprocessing part of the chromosome

#86 qiqi277 opened 2 weeks ago
0
Error while loading shared libraries: libncurses.so.5 not found

#85 ttt-404 opened 3 weeks ago
1
"NA" in putativeSNV.csv$LDrefine_trioLoci_score and LDrefine_merged_score

#84 Arsenalwins opened 1 month ago
1
Empty .gl.vcf.gz files running example data.

#83 imev2023 closed 1 month ago
0
How to run Monopogen gremlin on R2 of 10x fastq

#82 amirshams84 opened 1 month ago
1
cmd1 bug in Monopgen.py

#81 imev2023 closed 1 month ago
1
Program beagle.08Feb22.fa4.jar cannot be found

#80 wkdeng closed 4 weeks ago
1
java.lang.OutOfMemoryError when running beagle

#79 wkdeng opened 1 month ago
1
Error due to md5sum of 1000G_phased vcf.gz

#78 chadohyeon closed 1 month ago
1
Error in running exmaple data

#77 anchormok closed 1 month ago
0
gremlin snvs on a per cell basis

#76 aidanshoham12 closed 4 weeks ago
2
Questions about genotype phasing for each SNV in each cell

#75 Li-Chengyu opened 2 months ago
2
Update Monopogen.py: line 98

#74 wgao688 opened 2 months ago
0
handling chromosome X

#73 xiaolinzhu opened 3 months ago
2
Monopogen treats multiple samples as single sample in germline SNV calling

#72 yu-tong-wang opened 3 months ago
3
installation & versions

#71 swvanderlaan closed 3 months ago
5
Number of Called Variants

#70 keertikoya opened 3 months ago
1
Incorrect version of beagle when using conda install monopogen

#69 hima-anbunathan-takara opened 4 months ago
5
Running monopogen on very large samples

#68 aidanshoham12 opened 4 months ago
0
Can i run Monopogen for non-tumor sample?

#67 ZehangJiang opened 4 months ago
1
can the somatic module identify indels?

#66 ad2n15 closed 4 months ago
3
germ line module not detecting full chromosome

#65 aidanshoham12 opened 5 months ago
3
Somatic Module on multiple chromosomes

#64 Arsamat opened 5 months ago
0
openCRAVAT application

#63 ariannadib opened 6 months ago
2
bam.lst file format

#62 aidanshoham12 opened 6 months ago
1
Error during LDrefinement

#61 Thapeachydude opened 6 months ago
10
The error in Germline calling step

#60 zhangdong360 closed 6 months ago
3
cell_snv.mat.gz missing

#59 ariannadib closed 6 months ago
8
Different somatic calls across Monopogen v.1.0 and v1.6.0

#58 ypershad opened 6 months ago
5
Cell by SNV matrix for germline

#57 yunguan-wang closed 6 months ago
1
v1.5.0 Monopogen fails on example data in "Somatic SNV calling from scRNA-seq"

#56 briansha closed 6 months ago
4
Missing chr20.germline.vcf from germline calling step

#55 briansha opened 6 months ago
8
Error in Germline SNV calling

#54 Teerapon789 opened 6 months ago
5
outputs of cellScan

#53 ariannadib opened 6 months ago
3
Error in ld refinement on putative somatic SNVs

#52 zhangdong360 closed 6 months ago
3
region "-o" specifies an unknown reference name

#51 ariannadib opened 6 months ago
1
chr20.gp.vcf.gz: No such file or directory

#50 dipingxian431 opened 7 months ago
5
number of snps before and after first out of imputation prior to phasing

#49 tbrunetti closed 7 months ago
2
GermCalling Target Markers

#48 ArunaNannapaneni closed 6 months ago
9
Germline job never finish

#47 MetteBoge opened 8 months ago
12
fixed

#46 MetteBoge closed 8 months ago
0
Lineage tracing

#45 SofiaFreiman closed 6 months ago
1
Monopogen’s test object

#44 dzxiaona closed 8 months ago
1
Run monopogen for more than 1 sample?

#43 ZhengJIN94 closed 6 months ago
2
Updates to Monopogen to work with new versions of samtools + bcftools

#42 swvanderlaan closed 3 months ago
0
region-file

#41 swvanderlaan closed 8 months ago
2
Explanation .gl, .gp, .phased files

#40 rafaella-buzatu opened 9 months ago
1
Can Monopogen use for calling variants in Malaria parasite single cell Data ?

#39 MJBioInfo closed 8 months ago
3
Bulk RNA seq

#38 ArunaNannapaneni closed 8 months ago
1
Imprinted genes identification

#37 singcell closed 9 months ago
2