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nanoporetech
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megalodon
Megalodon is a research command line tool to extract high accuracy modified base and sequence variant calls from raw nanopore reads by anchoring the information rich basecalling neural network output to a reference genome/transriptome.
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Generate mod_mapping with both options
#307
Yijun-Tian
closed
2 years ago
3
Aggregate separated results
#306
javiersanchezlorente
opened
2 years ago
1
add @PG to bam file header
#305
colindaven
closed
2 years ago
1
Deal with samtools sort returncode?
#304
zhanxw
closed
2 years ago
1
Could not load guppy server configuration state
#303
Yijun-Tian
closed
2 years ago
1
use help command to test samtools
#302
lexming
closed
2 years ago
3
Connection error. [basecall_config_unavailable]
#301
GeoMicroSoares
closed
2 years ago
1
Reusing modified basecalling results
#300
ziczhang
opened
2 years ago
8
GPU nodes
#299
ghost
closed
2 years ago
1
KeyError: 'stratify_type is not a file in the archive'
#298
jon-xu
opened
2 years ago
6
GPU Memory limit
#297
Lucas-Servi
closed
2 years ago
1
How to aggregate many batches per-read results into site level outputs?
#296
liuyang2006
closed
2 years ago
2
testing model of 6mA
#295
lemontin
closed
2 years ago
1
Could not load guppy server configuration state: 'Configurations'
#294
AlexdeMendoza
closed
2 years ago
1
megalodon Intel MKL FATAL ERROR
#293
AzlanNI
closed
2 years ago
1
Segmentation fault (core dumped) on running Megalodon
#292
nmierzam
opened
2 years ago
9
Models for 6mA methylations coming?
#291
Kirk3gaard
opened
2 years ago
6
Modified base shift on reverse strand?
#290
SkabbiVML
closed
2 years ago
3
Assertion alphabet error with all context 6mA/5mC rerio model
#289
HJeffery
closed
2 years ago
4
The number of 6mA and 5mC is approximately equal to the base number of the reference genome
#288
liangyong1991
closed
2 years ago
4
Can megalodon support to use other alignment tools to mapping?
#287
kir1to455
closed
2 years ago
1
RuntimeWarning: invalid value encountered in log1p can_lp = np.log1p(-np.exp(mt_lps).sum())
#286
billytcl
closed
2 years ago
1
basecalling issue: stop iteraton
#285
emily288
closed
2 years ago
6
Could I run megalodon without GPU?
#284
liangyong1991
closed
2 years ago
2
Result about Megalodon
#283
Flower9618
closed
2 years ago
3
Does megalodon take into account qscore filtering with Guppy?
#282
billytcl
closed
2 years ago
5
Guppy version string does not match expected pattern:
#281
Fatihlrcfs
closed
2 years ago
2
ERROR: per_read_mods output requested, but specified model does not support calling modified bases
#280
jon-xu
closed
2 years ago
10
RuntimeError: Link iteration failed (incorrect metadata checksum after all read attempts)
#279
billytcl
opened
2 years ago
1
ERROR: Guppy server initialization failed.
#278
Flower9618
closed
2 years ago
1
Variant phasing workflow generate 'CRF models' error
#277
liuyang2006
closed
2 years ago
2
--guppy-config question
#276
DiegoZavallo
closed
2 years ago
9
Multi-Instance GPU (MIG) Support?
#275
sklages
closed
2 years ago
1
Client 1 has timed out.
#274
jowodo
opened
2 years ago
5
certs on mirror.oxfordnanoportal.com expired
#273
ghost
closed
2 years ago
0
About speed and result format for Megalodon
#272
Flower9618
closed
2 years ago
4
Feature request: resume mode
#271
billytcl
closed
2 years ago
1
Add metadata to BAM files
#270
benbfly
opened
2 years ago
1
Getting C and G coordinates in megalodon output bedmethyle file evenif motif is specified with parameter --mod-motif Y A 0
#269
onkar2470
closed
2 years ago
0
Regarding training of a modified base model
#268
hukai916
closed
2 years ago
4
Does the bed methyl file contain both the fast5_fail and fast5_pass outputs?
#267
m0nib
closed
2 years ago
4
CUDA device 0 reached memory limit
#266
ysuzuki1978
closed
2 years ago
6
Version mismatch: Guppy version 6.0.6+8a98bbcbd
#265
ysuzuki1978
closed
2 years ago
3
How to generate bed file from sql database
#264
m0nib
closed
2 years ago
1
Create modified_bases.5mC.bed while liveprocessing
#263
m0nib
closed
2 years ago
3
Version matching problem
#262
ctl43
closed
2 years ago
3
modified_bases.5mC.bed does not correlate with the mod_mappings.5mC.bam in IGV bisulfite mode
#261
simpsonbp
closed
2 years ago
4
how to use Taiyaki trained model for modified base calling in megalodon
#260
ThomasSaturn
closed
2 years ago
2
[Errno 13] Permission error
#259
Valledor
closed
2 years ago
6
Output and method to quantify percent methylation
#258
simpsonbp
closed
2 years ago
2
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