Illumina Pisces issues - Githubissues

Illumina / Pisces

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

GNU General Public License v3.0

91 stars 16 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

Is there any filtering required on Gemini output?

#80 BrettLiddell opened 3 months ago
2
Confused with the last version releases

#79 Manuel-DominguezCBG opened 4 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 4 months ago
1
VennVcf 5.3.0.0 error: input string was not in a correct format

#77 fmazzarotto closed 6 months ago
0
How to limit chr to 1-22,XY?

#76 hfl112 opened 8 months ago
1
Can I disable the SB flag when not used?

#75 Manuel-DominguezCBG opened 9 months ago
1
WRONG VF FOR LOW FREQUENCY VARIANTS

#74 AriadnaColmeneroCobo opened 12 months ago
1
Read depth

#73 ad2n15 opened 1 year ago
0
Scylla taking a very long time to process WES data / getting stuck

#72 fmazzarotto opened 1 year 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 3 years ago
1
Gemini 5.2.11 does not complete - errors for different chromosomes

#55 kotliary opened 3 years ago
4
get forward and reverse support counts for Scylla merged variants

#54 argoat opened 3 years ago
1
Running picard sam format converter for batch sample

#53 zahraj242 opened 3 years ago
1
error running GATK workflow on local machine

#52 zahraj242 opened 3 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 4 years ago
0
Gemini 5.2.10.49 crashes

#46 Varunachander opened 4 years ago
0
GeminiMulti_5.2.11.163 crashes

#45 hansenaw opened 4 years ago
1
DP is greater than AD

#44 roselucia opened 4 years ago
13
1

#43 argoat closed 4 years ago
0
5.2.11.163 tarballs not in gzip format?

#42 hansenaw closed 4 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
Pisces input limits

#31 sbilobram opened 5 years ago
5