bioinfomaticsCSU deepsignal issues

bioinfomaticsCSU / deepsignal

Detecting methylation using signal-level features from Nanopore sequencing reads

GNU General Public License v3.0

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issues

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Need for 6mA detection package

#86 Bin-Ma opened 2 months ago
0
No output with DeepSignal Extract Command

#85 kewei2019 opened 1 year ago
2
What is this file: bn_17.sn_360.epoch_9.ckpt.data-00000-of-00001

#84 Arkadiy-Garber opened 1 year ago
2
Added sequences to a total of 0 reads.

#83 Arkadiy-Garber opened 1 year ago
1
Problem about Deepsignal in 6mA detection.

#82 Bin-Ma opened 2 years ago
4
Do I need Whole Genome Amplified dataset?

#81 shailabhr opened 2 years ago
3
Issue with downloading E.coli Nanopore data

#80 Bessyyi opened 2 years ago
0
Training of a custom model

#79 hukai916 closed 2 years ago
4
visualization the data

#78 Fatihlrcfs opened 2 years ago
5
Questions about sequence module

#77 Flower9618 closed 2 years ago
1
extract_features fails on all files

#76 jamesabbott closed 2 years ago
4
data problem

#75 Xiaoliugogogo closed 2 years ago
7
Questions on training function of DeepSignal

#74 PanZiwei closed 2 years ago
5
unsuccessfully processed reads

#73 xj-Liang-Olga closed 2 years ago
1
Trained Models and Yeast?

#72 JayVaz18 closed 3 years ago
4
Where does deepsignal save the temporary files?

#71 ViHammer closed 3 years ago
2
[Bug] DataLoss error while performing methylation calling using GATC model

#70 atger closed 3 years ago
11
What's the difference between the CpG model and the GATC model?

#69 123chenshixin closed 3 years ago
1
Updating DeepSignal? [question]

#68 davidebolo1993 closed 3 years ago
7
RNA methylation calling

#67 SilvanHaelg opened 3 years ago
8
Using multiple fast5 dirs

#66 unnatisonawala closed 3 years ago
4
guppy_basecaller in README.md instructions

#65 kxk302 closed 3 years ago
2
Training model with more than 2 classes

#64 pterzian closed 3 years ago
1
Available trained model on E.coli data?

#63 mandichen closed 3 years ago
2
ModuleNotFoundError: No module named 'txt_formater'

#62 PanZiwei closed 3 years ago
1
Training or calling with multiple GPU

#61 pterzian closed 3 years ago
1
Error while running call mods using GATC model

#60 onkar2470 closed 3 years ago
2
defining methyl_label

#59 akk01 closed 3 years ago
1
The feature extraction output 'signal_means' are different from the value in fast5 files.

#58 LongxianChen closed 3 years ago
1
Problems with call_mods

#57 cyber-ux closed 3 years ago
14
Information about deepsignal

#56 cyber-ux closed 3 years ago
16
The original FAST5 file looked for 6mA loci

#55 chenchen-eng closed 3 years ago
5
Albacore paramter used for basecalling

#54 akk01 closed 3 years ago
2
Example training and validation data

#53 akk01 closed 3 years ago
6
Genome sequence in feature extraction

#52 PanZiwei closed 3 years ago
4
wget link for data

#51 akk01 closed 3 years ago
2
Question about train dataset

#50 Jerry-0591 closed 3 years ago
6
Results of extract features step

#49 Jerry-0591 closed 3 years ago
5
Output BED format of call_mods_freq results

#48 PengNi closed 2 years ago
1
Error when using newly trained model

#47 pterzian closed 3 years ago
4
How to calculate methylation frequencies from predict probability

#46 PanZiwei closed 4 years ago
3
Clarification about filter_samples_by_positions.py

#45 pterzian closed 4 years ago
1
Nanopore data for NA12878

#44 PanZiwei closed 4 years ago
2
process interrupt

#43 PengNi closed 3 years ago
2
HX1 Data availability

#42 vahidAK closed 4 years ago
7
Warning and missing checkpoint with model training on gpu

#41 pterzian closed 4 years ago
12
Deepsingal not running on gpu

#40 avitalsteiman closed 4 years ago
4
insertion methylation level

#39 Yeeok closed 4 years ago
1
Problem while running deepsignal on GPU

#38 stefanucci-luca closed 4 years ago
1
Questions about plant DNA methylation

#37 LongZhao1992 closed 4 years ago
4