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mehrdadbakhtiari
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adVNTR
A tool for genotyping Variable Number Tandem Repeats (VNTR) from sequence data
http://advntr.readthedocs.io/
BSD 3-Clause "New" or "Revised" License
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IndexError while running advntr genotype
#72
muyao11
opened
2 months ago
0
Slow addmodel
#71
muyao11
closed
3 months ago
2
addmodel error
#70
BrendaLee1
opened
4 months ago
1
Add accuracy filter for hifi reads
#69
sara-javadzadeh
closed
7 months ago
0
Error running advntr --help
#68
aravindpad
opened
7 months ago
14
IndexError when running `advntr addmodel`
#67
jsquaredosquared
opened
9 months ago
0
why is python >= 3.7 skipped during build?
#66
yangxingyu588
closed
2 months ago
1
Is there a db file of hg38 matching pacbio data?
#65
Xiaodiao1111
opened
11 months ago
0
only None copy numbers in the output file
#64
maryamghr
opened
11 months ago
5
Save long VNTRs to the VNTR database
#63
sara-javadzadeh
closed
1 year ago
0
Non-human data
#62
guandailu
closed
2 months ago
1
Add individual read info in Illumina logs
#61
sara-javadzadeh
closed
1 year ago
0
Clear warning outputs
#60
Jong-hun-Park
opened
1 year ago
0
Output VNTR that raised errors during genotyping in VCF and BED format
#59
Jong-hun-Park
closed
1 year ago
1
Fix sequence slicing bug
#58
Jong-hun-Park
closed
1 year ago
0
Remove unnecessary viterbi on reverse complement
#57
Jong-hun-Park
closed
1 year ago
0
Add flag to disable logging. Fix enum related error.
#56
sara-javadzadeh
closed
1 year ago
0
Add read_id and mapped/unmapped status to logged pacbio reads.
#55
sara-javadzadeh
closed
1 year ago
2
Add exception handling for Illumina reads, unmapped reads and framesh…
#54
sara-javadzadeh
closed
1 year ago
0
Add exception handling for Pacbio aligned reads.
#53
sara-javadzadeh
closed
2 years ago
0
Log pacbio reads flag
#52
sara-javadzadeh
closed
2 years ago
0
Error with genotype
#51
R-Laksh
opened
2 years ago
2
adNVTR using assembly-level data
#50
WeiYang-BAI
closed
2 years ago
2
Fix the error in saving VNTRs
#49
sara-javadzadeh
closed
2 years ago
0
Build Data Base for other species
#48
BrendaLee1
closed
2 years ago
0
Help understanding outputs
#47
hchetia
closed
2 years ago
20
Output with --haploid option
#46
Jong-hun-Park
opened
3 years ago
0
sqlite3.OperationalError: disk I/O error
#45
Parsoa
opened
3 years ago
2
Genotype error
#44
ghzhaole
closed
3 years ago
4
subset hg19_genic_VNTRs.db
#43
psychrb
closed
1 year ago
1
Genotype Error
#42
BrendaLee1
closed
2 months ago
5
vcf Output-Filter is all . instead of PASS
#41
psychrb
closed
3 years ago
1
Change version of h5py to 2.10.0
#40
hevmarriott
opened
3 years ago
0
Can't run adVNTR genotype - unexpected keyword argument 'max_prob'
#39
hevmarriott
closed
3 years ago
1
vcf header
#38
psychrb
closed
3 years ago
1
adVNTR doesn't output the correct genotype on the CSTB sample data
#37
Jong-hun-Park
closed
1 year ago
1
outformat
#36
psychrb
closed
3 years ago
8
Issues running advntr genotype
#35
aob93
closed
2 months ago
9
OSError: [Errno 24] Too many open files
#34
nbargues
closed
2 months ago
3
trained VNTR models for Nanopore data
#33
nbargues
opened
4 years ago
3
Contig tag in VCF header
#32
Jong-hun-Park
closed
4 years ago
0
Haplotype call for VNTRs on chrY
#31
Jong-hun-Park
opened
4 years ago
0
Replace ndarray to memoryview
#30
Jong-hun-Park
closed
4 years ago
0
Cythonized enhanced hmm
#29
Jong-hun-Park
closed
4 years ago
0
Support for python-3.7
#28
mehrdadbakhtiari
closed
2 years ago
3
Fix frameshift identification algorithm using Enhanced HMM
#27
Jong-hun-Park
closed
4 years ago
0
Enhanced hmm
#26
Jong-hun-Park
closed
4 years ago
0
Including Keras as a requirement
#25
Jong-hun-Park
closed
4 years ago
0
README update for VCF
#24
Jong-hun-Park
closed
4 years ago
1
Add VCF output for short reads
#23
Jong-hun-Park
closed
4 years ago
0
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