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MathOnco
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NeoPredPipe
Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.
GNU Lesser General Public License v3.0
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get no neoantigen when running with Example .vcf files
#49
Hupingdong
closed
2 months ago
1
RecognitionPotential: invalid literal for int() with base 10
#48
tucano
closed
2 months ago
2
ImportError: cannot import name 'Panel' from 'bokeh.models.widgets'
#47
evelyn-schmidt
closed
2 months ago
1
1. Added support for wild-type neoantigen peptide segments.
#46
biolxy
opened
9 months ago
0
AttributeError: 'Sample' object has no attribute 'appendedEpitopesIndels'
#45
QianRongAn
closed
2 months ago
2
NeoRecoPo.py error
#44
h170607
closed
1 year ago
1
Is there any parameter to set up multithreading?
#43
h170607
closed
2 months ago
1
Docker version
#42
WuRAFY
closed
2 months ago
1
Conversion script for netMHCpan 4.1 output
#41
tucano
closed
11 months ago
1
Bug fix for NeoClass.py:
#40
tucano
closed
1 year ago
0
BeoClass bug: in python 3 filter return an iterator.
#39
tucano
closed
1 year ago
1
Output empty with test data
#38
tucano
closed
1 year ago
3
Indel not processing correctly
#37
RTCarmo
closed
1 month ago
1
the origin of the Expression column in the output when not specifying RNA-seq data
#36
fangfang0906
closed
11 months ago
7
NeoRecoPo.py IndexError
#35
XiangweiZhai
closed
11 months ago
1
Problem with sample processing for Indels
#34
rschenck
closed
2 months ago
0
how to set -c option?
#33
XiangweiZhai
closed
2 years ago
2
list index out of range_postprocessing.py
#32
ghost
closed
1 year ago
2
Wildtype output field
#31
Jprazich2
closed
3 years ago
1
IndexError: list index out of range in NeoRecoPo step
#30
wt12318
closed
3 years ago
3
BindLevel results from %Rank_EL or %Rank_BA
#29
wt12318
closed
3 years ago
1
The meaning of some columns
#28
wt12318
closed
3 years ago
3
How use NeoPredPipe without HLA information?
#27
liminghao663
closed
3 years ago
1
Invalid literal error in postprocessing.py
#26
Reda94
closed
1 year ago
0
Neoantigen burden in mouse
#25
Francesc-Muyas
opened
3 years ago
6
python TabError problem
#24
Xiaohuaniu0032
closed
3 years ago
1
multi or single region
#23
beginner984
closed
4 years ago
13
Which HLA type file I better to use
#22
beginner984
closed
4 years ago
2
NeoRecoPo.py error
#21
xicola7
closed
4 years ago
20
Issue about Running type-II HLA neoantigens
#20
chenyx47
closed
4 years ago
1
TypeII neoantigen detection errors
#19
wangshun1121
closed
4 years ago
2
AttributeError: Sample instance has no attribute 'appendedEpitopesIndels'
#18
ravichas
closed
4 years ago
10
IndexError in MakeTempFastas
#17
wangyqhaha
closed
4 years ago
7
Deletions from Strelka VCF to annovar
#16
damjanmk
closed
5 years ago
0
I don't get the results
#15
kkyung412
closed
4 years ago
7
Should I get the HLAtype with tumor bam or normal bam？
#14
Tiredbird
closed
5 years ago
1
The problems I met in the result of MHC-II
#13
Tiredbird
closed
5 years ago
1
Is PeptideMatch necessary？
#12
Tiredbird
closed
5 years ago
1
What is parameters c(colregions) means?
#11
Tiredbird
closed
5 years ago
1
nothing in TestRun.neoantigens.txt
#10
axiba053
closed
5 years ago
4
Can this pipeline predict the Neoantigen with HLA class II data？
#9
Tiredbird
closed
5 years ago
5
Updated with user options for NeoPredViz, added NeoPredViz.md, update…
#8
rschenck
closed
5 years ago
0
Issue with -dbtype option to ANNOVAR annotate_variation.pl
#7
asoltis
closed
5 years ago
2
OSError: [Errno 8] Exec format error
#6
qindan2008
closed
5 years ago
6
Added Eszter additions for indel support
#5
rschenck
closed
5 years ago
0
new error in postprocess
#4
ChengYunazhi
closed
5 years ago
3
vcf_manipulate.py
#3
ChengYunazhi
closed
5 years ago
4
ERROR: HLA type not found for Z1712369T hla-c03:100
#2
ChengYunazhi
closed
5 years ago
1
UnboundLocalError: local variable 'genoTypesPresent' referenced before assignment
#1
qindan2008
closed
5 years ago
2