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kishwarshafin
/
pepper
PEPPER-Margin-DeepVariant
MIT License
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PEPPER-Margin-DeepVariant takes more cores than limit
#208
martabaragli
opened
2 months ago
1
Error in margin phase :No valid VCF entries found!
#207
kch4221
opened
3 months ago
0
generated haplotagged BAM file
#206
nikhita-damaraju
closed
4 months ago
0
Issue with docker GPU
#205
martabaragli
opened
5 months ago
0
phasing between R9 and R10 data
#204
Yijun-Tian
opened
6 months ago
0
Can pepper be used for short contigs?
#203
zhan4429
opened
7 months ago
0
Samples w/older guppy
#202
dmjask
opened
8 months ago
0
Install local copy of pepper.
#201
TheSequencingCenter
closed
8 months ago
1
Do I have to train a model for specific organism ?
#200
Modernism-01
opened
8 months ago
0
Snp prediction accuracy is low in all difficult mapping areas
#199
oranges7
opened
8 months ago
1
Joint Genotyping Recommendation
#198
SophieS9
opened
9 months ago
0
Fix transformer model output shape error
#197
AyanoClarke
opened
10 months ago
0
ImportError with Singularity
#196
aCoalBall
opened
11 months ago
0
Root privileges
#195
Meer9234
opened
11 months ago
0
MARGIN using param file for older model
#194
thainsCEB
opened
12 months ago
0
Model for Guppy 6.5.7 SUP and/or Dorado 0.34
#193
gchevignon
opened
1 year ago
1
Dockerfile
#192
yneuma
opened
1 year ago
0
Bump torch from 1.10.0 to 1.13.1
#191
dependabot[bot]
opened
1 year ago
0
HiFi_variant_calling tutorial inconsistent
#190
splaisan
opened
1 year ago
0
resuming the run
#189
Shruti-BioCode
opened
1 year ago
1
Could not read from reference fasta file.
#188
sinha-shruti
closed
1 year ago
1
Issues while trying use the singularity image
#187
kiratalreja3
opened
1 year ago
0
Deepvariant pepper settings for duplex calling
#186
alvinwt
opened
1 year ago
0
KeyError: "Unable to open object (object 'predictions' doesn't exist)"
#185
hannahgoldswain
opened
1 year ago
0
Installation issue with pytorch
#184
noncodo
opened
1 year ago
1
am I running this wrong?
#183
shinlin77
opened
1 year ago
7
Can you make pepper available on conda, please?
#182
yuukiiwa
opened
1 year ago
1
g.vcf
#181
shinlin77
closed
1 year ago
1
Calloc issue with docker even after allocating memory - margin polish
#180
sofiabanu
closed
1 year ago
1
Local PEPPER installation for variant calling
#179
leonorpalmeira
closed
1 year ago
4
Disabling dawnsampling in pepper_margin_deepvariant ?
#178
kiflu-23
opened
1 year ago
4
not producing PEPPER_HP_OUTPUT_2.vcf.gz output for sample data pepper polishing (v.04)
#177
plnspineda
closed
1 year ago
0
Seq2Seq_atn.py
#176
ElaheA90
closed
1 year ago
1
./. GQ=0 in gvcf where I have high coverage as homozygous reference
#175
aguygarner
closed
1 year ago
1
DeepVariant Step Error: PythonNext() argument variant is not valid: Dynamic cast failed
#174
weilu1998
closed
1 year ago
3
issue in running Pepper
#173
tahashmi
closed
1 year ago
1
Phasing into a single phaseset across targeted region of interest
#172
smf96
closed
1 year ago
6
Critical Vulnerabilities in the published Docker image
#171
rberg2
closed
1 year ago
2
pysam not working
#170
Az513
closed
1 year ago
1
.csi indexing when phasing
#169
aguygarner
closed
1 year ago
4
ERROR: basic_string::substr
#168
chilampoon
closed
1 year ago
4
Ambiguous IUPAC bases appearing in output VCF violate VCF Spec
#167
rickymagner
opened
2 years ago
4
Depth differences between r0.5 and r0.8
#166
VLeducq
closed
1 year ago
3
Genotype quality graph always 0
#165
cdebuck
opened
2 years ago
1
optimal GPU type
#164
COMInterop
closed
1 year ago
1
Setting Guppy version
#163
vladimirsouza
closed
1 year ago
5
run error on run_deepvariant.py
#162
windforclouds
closed
2 years ago
0
Margin-[E::hts_open_format] Failed to open file .bam
#161
infotmatician
closed
1 year ago
3
RefCall vs. PASS
#160
yifeng-evo
closed
2 years ago
3
ImportError
#159
BrendaLee1
closed
2 years ago
1
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