Illumina Pisces issues - Githubissues

Illumina / Pisces

Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.

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Calling variants with frequency lower than 1%

#81 fa-vio opened 1 month ago
0
Is there any filtering required on Gemini output?

#80 BrettLiddell opened 8 months ago
2
Confused with the last version releases

#79 Manuel-DominguezCBG opened 9 months ago
3
A fatal error was encountered. The library 'libhostpolicy.so' required to execute the application was not found in '/home/dominm/install_dotnet/GeminiMulti_5.2.10.49/'.

#78 Manuel-DominguezCBG closed 9 months ago
1
VennVcf 5.3.0.0 error: input string was not in a correct format

#77 fmazzarotto closed 11 months ago
0
How to limit chr to 1-22,XY?

#76 hfl112 opened 1 year ago
1
Can I disable the SB flag when not used?

#75 Manuel-DominguezCBG opened 1 year ago
1
WRONG VF FOR LOW FREQUENCY VARIANTS

#74 AriadnaColmeneroCobo opened 1 year ago
1
Read depth

#73 ad2n15 opened 2 years ago
0
Scylla taking a very long time to process WES data / getting stuck

#72 fmazzarotto opened 2 years ago
1
Bump Newtonsoft.Json from 9.0.2-beta2 to 13.0.1 in /src/lib/Alignment.IO

#71 dependabot[bot] opened 2 years ago
0
Bump Newtonsoft.Json from 9.0.2-beta2 to 13.0.1 in /src/lib/Common.IO

#70 dependabot[bot] opened 2 years ago
0
Creating a GenomeSize.xml for a soybean genome

#69 brunabavelino opened 2 years ago
3
Pisces has different dp and no call？

#68 user-tq opened 2 years ago
1
“No usable version of the libssl was found” on Linux

#67 HEKntg opened 2 years ago
1
Can Pisces set the maximum coverage/sequence depth for SNV calling ?

#66 ltongyu opened 3 years ago
1
where can i download Scylla ?

#65 worker000000 opened 3 years ago
1
Stitcher don't have --intervals argument

#64 liuhongwei2018 closed 3 years ago
0
Does Pisces infer germline variants in tumor-only samples?

#63 abalter closed 3 years ago
2
What's the difference between --collapse and --crushvcf options of Pisces

#62 ShannonDaddy opened 3 years ago
2
Get forward and reverse reads supportting the allele depth(refand alt)，respectively

#61 diushiguzhi opened 3 years ago
1
Gemini 5.3.0.0 Nullable object Error

#60 ShannonDaddy opened 3 years ago
1
Pisces outputting 'Alignment error'

#59 fmazzarotto closed 3 years ago
3
just FYI, for those who want to develop or debug Pisces on Linux..

#58 tamsen opened 3 years ago
5
Does Pisces recognize the base quality score from PacBio HiFi reads?

#57 turningA opened 3 years ago
2
How the strand bias and R3x6 filter works in illumina platform?

#56 N3ha247 opened 4 years ago
1
Gemini 5.2.11 does not complete - errors for different chromosomes

#55 kotliary opened 4 years ago
4
get forward and reverse support counts for Scylla merged variants

#54 argoat opened 4 years ago
1
Running picard sam format converter for batch sample

#53 zahraj242 opened 4 years ago
1
error running GATK workflow on local machine

#52 zahraj242 opened 4 years ago
0
clustered snps can't be merged by scylla

#51 ShannonDaddy opened 4 years ago
2
Hi, how to deal with multiple variants in a small region

#50 ShannonDaddy opened 4 years ago
5
Targeting with bed files

#49 ben-sanders opened 4 years ago
1
Empty output

#48 jlee110 opened 4 years ago
1
Limit RAM for GeminiMulti

#47 dollinad opened 5 years ago
0
Gemini 5.2.10.49 crashes

#46 Varunachander opened 5 years ago
0
GeminiMulti_5.2.11.163 crashes

#45 hansenaw opened 5 years ago
1
DP is greater than AD

#44 roselucia opened 5 years ago
13
1

#43 argoat closed 5 years ago
0
5.2.11.163 tarballs not in gzip format?

#42 hansenaw closed 5 years ago
3
PG tag in Gemini malformatted

#41 gwennberry opened 5 years ago
1
Add insert size (IS) tag to stitched reads in Gemini

#40 gwennberry opened 5 years ago
0
RMxN filter

#39 saty89 closed 5 years ago
3
Error Gemini 5.2.11

#38 XavierMialhe opened 5 years ago
8
About the SNP result

#37 hmyh1202 opened 5 years ago
1
Release/pisces 5 2 11 open

#36 gwennberry closed 5 years ago
2
5.2.11 release

#35 gwennberry closed 5 years ago
1
Pisces does not support multi-Mapped reads

#34 chadisaad opened 5 years ago
3
Gemini error - v5.2.10.49

#33 saty89 opened 5 years ago
5
Pisces calling error - v5.2.10.49

#32 saty89 opened 5 years ago
8