luntergroup octopus issues

luntergroup / octopus

Bayesian haplotype-based mutation calling

MIT License

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Converting CSV file from classified calls

#82 24natasya closed 4 years ago
6
MAP_VAF in Cancer Calling Model

#81 JesseDGibson closed 4 years ago
15
[src/CMakeFiles/octopus.dir/utils/memory_footprint.cpp.o] Error 1

#80 wentgithub closed 4 years ago
14
repeat

#79 wentgithub closed 5 years ago
1
can this tool applied to amplicon data? what is the bam input, after mark duplicates?

#78 wentgithub closed 5 years ago
5
how the software distinguish gemline or somatic in one sample mode

#77 wentgithub closed 5 years ago
6
I have true sets, which vardict call high FP in tumor-only

#76 wentgithub closed 5 years ago
6
How to interpret `*` with extra bases as an ALT allele

#75 tfenne closed 5 years ago
2
Missing SSE instructions during compilation

#74 jbedo closed 5 years ago
2
Downloading forest germline variant

#73 24natasya closed 5 years ago
3
Long run times

#72 ccs76 closed 4 years ago
25
Mal formated BAM

#71 Tcvalenzuela closed 5 years ago
1
CancerCaller: normal sample is not a valid sample

#70 dollinad closed 5 years ago
1
Problems with ' $ python3 ./test/install.py'

#69 Tcvalenzuela closed 5 years ago
1
Core dumps when attempting to use custom --seqence-error-model

#68 iamh2o closed 5 years ago
2
Profiler Script Failing w/Pandas Error

#67 iamh2o closed 5 years ago
6
Filtering measures can give inconsistent results

#66 dancooke closed 5 years ago
0
Error building custom error profile with script profiler.py

#65 johnemajor closed 5 years ago
1
Config file handling of --kmer-sizes broken

#64 iamh2o closed 4 years ago
3
Question: Does octopus support short genome?

#63 ChuanyiZ closed 5 years ago
4
Terminate called after throwing an instance of 'std::out_of_range'

#62 iamh2o closed 4 years ago
8
Getting number of reference and variant reads in cancer model

#61 programmingprincess closed 5 years ago
1
Question: can we genotype a germline sample at sites with known alleles?

#60 nh13 closed 3 years ago
1
Any chance of updating the bioconda recipe to 0.6.3-beta?

#59 tfenne closed 4 years ago
5
Random Forest file not accesible

#58 XavierMialhe closed 5 years ago
2
--bamout feature doesn't split output

#57 mehrankr closed 5 years ago
7
Octopus writes out unicode characters in the VCF header

#56 ryanrichholt closed 5 years ago
1
Calling with cancer module and -t increases runtime multifold

#55 nuin closed 5 years ago
3
Installation issue

#54 jopineda closed 5 years ago
4
Reducing runtime by a scatter/gather approach ?

#53 af8 closed 5 years ago
2
Early crash in multithreaded mode

#52 cinquin closed 5 years ago
4
Assertion failed: (v.alt.size() > repeat.period), function complete_partial_alt_repeat

#51 cinquin closed 5 years ago
3
Segfault occurring during somatic variant calling

#50 pjongeneel closed 5 years ago
11
N+1 calling (or gVCF calling)

#49 shalabhsuman closed 5 years ago
2
octopus-0.5.2-beta compilation, Centos 6.9

#48 jbsysadmin closed 5 years ago
1
update $PATH to include brew binaries when using --install-dependencies

#47 gmagoon closed 5 years ago
1
REF contains IUPAC ambiguity symbols

#46 dancooke closed 5 years ago
1
Missing homozygous variant call

#45 brendanofallon closed 5 years ago
4
program error on calling with hs38DH.fa

#44 gmagoon closed 5 years ago
6
octopus-0.5.2-beta does not compile, Centos 6.9

#43 jbsysadmin closed 5 years ago
10
Random Forest files not accessible in Google Cloud

#42 delavefm closed 5 years ago
1
Population calling sample limit

#41 Thatguy027 closed 5 years ago
9
Compilation dies at 100%

#40 lachlansimpson closed 5 years ago
5
Illegal instruction (core dumped)

#39 DataOmics76 closed 5 years ago
1
HTSLIB not found

#38 lachlansimpson closed 5 years ago
4
cmake3 note found on CentOS

#37 lachlansimpson closed 5 years ago
2
Python install script is non standard, documentation needs clarification

#36 lachlansimpson closed 5 years ago
2
Realigned BAM not sorted

#35 ChristopheLegendre closed 5 years ago
3
"illegal hardware instruction" when running Octopus installed via Conda

#34 maciejmotyka closed 6 years ago
1
Output realigned BAM files in Cancer Somatic Mode

#33 ChristopheLegendre closed 6 years ago
4

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