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icbi-lab
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nextNEOpi
nextNEOpi: a comprehensive pipeline for computational neoantigen prediction
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License not recognized, Singularity image pull error
#79
CSree
opened
3 weeks ago
1
Singularity image pull: "FATAL: the requested image was not found"
#78
CSree
closed
1 month ago
3
Error executing process > 'install_IEDB (Install IEDB)'
#77
Xiao-Zhong
opened
2 months ago
3
Does "nextNEOpi_1.4_resources.tar.gz" have the blast references required by nextNEOpi?
#76
Xiao-Zhong
closed
2 months ago
2
pVACseq (test_sample)` terminated with an error exit status (1)
#75
DecodeGenome
closed
3 months ago
1
pVACtools_generate_protein_seq (test_sample)` terminated with an error exit status (1)
#74
DecodeGenome
closed
3 months ago
5
Process `OptiType_RNA (test_sample)` terminated with an error exit status (1)
#73
DecodeGenome
closed
3 months ago
13
example of custom HLAs
#72
mantczakaus
closed
3 months ago
0
mixMHC2pred not triggered when custom HLAs are used
#71
mantczakaus
opened
6 months ago
1
'use_custom_hlas' not defined in the main script or the params file
#70
mantczakaus
closed
3 months ago
0
Is .cram input format supported?
#69
yh154
closed
8 months ago
1
amino acids sometimes doesn't match the reference or variant
#68
zktuong
closed
8 months ago
2
Process `get_vhla (test)` terminated with an error exit status (1)
#67
rashidma
closed
4 months ago
32
`pVACseq ` terminated with an error exit status (1)
#66
sasi-arunachalam
closed
3 months ago
2
mkfifo: cannot create fifo : Operation not supported
#65
rashidma
closed
4 months ago
2
How could I improve this pipeline?
#64
gri11
opened
9 months ago
0
Error executing process "installVEPcache"
#63
ryao-mdanderson
closed
4 months ago
7
HLA-HD silently fails if bowtie2 is not installed/loaded
#62
dmgie
closed
3 months ago
1
including SNV/indel calling on RNA-seq data
#61
zktuong
closed
9 months ago
1
Error executing process > 'pVACseq (sample1)'
#60
gri11
closed
3 months ago
4
Failed to run, issues related to pvacseq , etc
#59
CSree
closed
4 months ago
5
nextNEO resources bundle installation issues
#58
bbmorris1
closed
4 months ago
4
Process `installVEPcache (installVEPcache)` terminated with an error exit status (104)
#57
rashidma
closed
9 months ago
4
pVACSeq chmod error
#56
zktuong
closed
10 months ago
4
NeoFuse: long running time
#55
fredsamhaak
closed
11 months ago
4
Target regions bed file for TESLA patients 4,8,9
#54
mantczakaus
closed
11 months ago
3
Error executing process > 'gatherMutect2VCFs (sample2)'
#53
amoschoomy
closed
9 months ago
11
error message when run a test case
#52
ryao-mdanderson
closed
9 months ago
12
Nextflow installation error
#51
bbmorris1
closed
11 months ago
3
Bwa terminated with an error exit status (137) -- Execution is retried
#50
amoschoomy
closed
11 months ago
5
make_uBAM process error
#49
gri11
closed
11 months ago
13
Lacking VEP cache file Homo_sapiens.GRCh38.dna.toplevel.fa.gz
#48
wwoskie
closed
11 months ago
6
work folder
#47
amoschoomy
closed
11 months ago
1
CNNscoreVariant terminated with an error exit status (2)
#46
rashidma
closed
11 months ago
6
Pipeline complete but missing output file(s) for immunogenicity scoring
#45
amoschoomy
closed
11 months ago
3
update bioconda channels link
#44
wwoskie
closed
11 months ago
1
Installation error with mamba
#43
fredsamhaak
closed
3 months ago
14
Unable to parse config file: '/a/b/nextNEOpi/conf/params.config'
#42
rashidma
closed
12 months ago
7
Error in SetNmMdAndUqTags: Input must be coordinate-sorted
#41
gri11
closed
4 months ago
5
yara_mapper doesn't run properly
#40
mantczakaus
closed
1 year ago
5
Rerunning the pipeline from pVACseq
#39
mantczakaus
closed
11 months ago
5
add testdata_batchFile_FASTQ.csv
#38
gri11
closed
11 months ago
1
Can run on sensitive data cluster without internet access?
#37
richelbilderbeek
closed
1 year ago
3
Check if files exist, better error message than 'Cannot get property 'simpleName' on null object'
#36
richelbilderbeek
closed
1 year ago
2
nextNEOpi in DSL2/tool upgrades?
#35
mantczakaus
closed
1 year ago
1
No such file [...]/references/hg38/gdc/GRCh38.d1.vd1/fasta/hg38.len
#34
richelbilderbeek
closed
1 year ago
2
Provide test data
#33
richelbilderbeek
closed
1 year ago
5
Issue with
#32
mulqueenr
closed
1 year ago
4
Random error with NetMHCII
#31
mantczakaus
closed
1 year ago
4
-resume goes all the way back to SplitIntervals, make_uBAM and Bwa
#30
mantczakaus
closed
1 year ago
3
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