WGLab DeepMod issues - Githubissues

WGLab / 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 weeks ago
2
Installation problems in 2023

#61 anish-taori closed 9 months 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 2 years ago
0
Why DeepMod program filter out sites with `methylated coverage==0` predicted by DeepMod?

#49 liuyangzzu closed 2 years ago
5
How to get the label of Chlamydomonas reinhardtii.

#48 Bessyyi opened 2 years ago
1
what should I do if there are too many methylation sites detected?

#47 chenchen-eng opened 2 years ago
1
Using DeepMod for other eukaryote species

#46 rodriguesbc opened 2 years ago
1
What datasets can be used to run DeepMod

#45 gottaMe opened 2 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 3 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 4 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 4 years ago
4
No Channel Info

#21 Zhenhuiz closed 4 years ago
4
Does DeepMod support 5hmc detection now?

#20 mbasam closed 4 years ago
1
No Fastq data in fast5

#19 qiuyixmm closed 4 years ago
6
Can DeepMod support multi-fast5 files?

#18 gongyh closed 4 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