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WGLab
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DeepMod
DeepMod: a deep-learning tool for genomic-scale, strand-sensitive and single-nucleotide based detection of DNA modifications
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Can DeepMod use to other single bacteria such as Pseudomonas aeruginosa? Which command can I use?
#62
rhyer0418
opened
4 months ago
2
Installation problems in 2023
#61
anish-taori
closed
1 year ago
2
Any help appreciated with very cryptic errors
#60
Arkadiy-Garber
opened
1 year ago
1
No event in fast5 files.
#59
Bin-Ma
opened
1 year ago
7
Error!!! No Raw_reads/Signal data /Raw/Reads
#58
bakeronit
opened
1 year ago
3
methylation calling in non-CpG context (CHG and CHH)
#57
yusmiatiliau
opened
1 year ago
2
No events data in fast5
#56
fire-activate
opened
2 years ago
5
No events data in fast
#55
fire-activate
closed
2 years ago
0
7-feature description about an event for the Deepmod
#54
Flower9618
opened
2 years ago
1
Update Install.md
#53
loafyyy
opened
2 years ago
0
Cannot open fast5 or other errors
#52
zmy24
opened
2 years ago
5
GPU recommendations?
#51
chuanli11
opened
2 years ago
1
shared motif information and scripts
#50
liuqianhn
closed
3 years ago
0
Why DeepMod program filter out sites with `methylated coverage==0` predicted by DeepMod?
#49
liuyang2006
closed
2 years ago
5
How to get the label of Chlamydomonas reinhardtii.
#48
Bessyyi
opened
3 years ago
1
what should I do if there are too many methylation sites detected?
#47
chenchen-eng
opened
3 years ago
1
Using DeepMod for other eukaryote species
#46
rodriguesbc
opened
3 years ago
1
What datasets can be used to run DeepMod
#45
gottaMe
opened
3 years ago
8
Error information for different fast5 files: Not in alignment sam 1095
#44
Bessyyi
opened
3 years ago
1
Error!!! No events data in 5aee471d-de7c-4310-9402-a2dcbe4e2286.fast5
#43
123chenshixin
opened
3 years ago
6
Using deepmod on basecalled fast5 from latest guppy
#42
hasindu2008
opened
3 years ago
8
"python bin/DeepMod.py detect" produces error
#41
ViHammer
closed
3 years ago
2
What are 7th-9th columns in the output?
#40
PanZiwei
closed
3 years ago
3
Error!!! No Channel Info in /users/PAE57595_pass_barcode01_83605eaf_16.fast5
#39
chenchen-eng
opened
4 years ago
7
Deepmod-GPU
#38
Marozi2
closed
3 years ago
2
How to filter results?
#37
qiuyixmm
closed
3 years ago
4
Evaluation of Na12878 dataset
#36
Jerry-0591
closed
3 years ago
11
The result of NA12878 and HX1
#35
Smart-zhi
opened
4 years ago
13
Trained models and training DeepMod
#34
pepebonet
opened
4 years ago
2
Does the model support using move table?
#33
vahidAK
closed
3 years ago
2
No Fastq data in fast5
#32
laguda-1996
opened
4 years ago
6
basecaller versions
#31
skerker
closed
3 years ago
7
On version of tensorflow
#30
orangehe
closed
4 years ago
2
No events data in fast5
#29
lqsae
closed
3 years ago
30
Can I use flappie guppy or taiyaki run base call process, and then running DeepMod process for methylation calling?
#28
forrwill
closed
3 years ago
2
The index of the first base is less than -2
#27
lemonsky123
closed
4 years ago
13
Add move table function
#26
yaoluxun
closed
4 years ago
2
Description for models used in different situation
#25
chenkenbio
closed
5 years ago
2
Basecalled fast5 files
#24
vahidAK
closed
4 years ago
13
where to download albacore v2.3+
#23
Zhenhuiz
closed
4 years ago
6
Does DeepMod support 6mA detection in human sample?
#22
blanleung
closed
5 years ago
4
No Channel Info
#21
Zhenhuiz
closed
5 years ago
4
Does DeepMod support 5hmc detection now?
#20
mbasam
closed
5 years ago
1
No Fastq data in fast5
#19
qiuyixmm
closed
5 years ago
6
Can DeepMod support multi-fast5 files?
#18
gongyh
closed
5 years ago
2
Model Training: Parameters and model metrics
#17
cednotsed
closed
4 years ago
3
Question about the format of input data
#16
Musketeer-D
closed
5 years ago
2
Reproducibility: NA12878 Dataset
#15
cednotsed
opened
5 years ago
1
Question about the format of output
#14
Musketeer-D
closed
5 years ago
2
the output format of detect module
#13
PengNi
closed
5 years ago
2
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