PengNi/deepsignal-plant issues and pull requests

#41 - Is DeepSignal Plant / DeepSignal3 deterministic?

Issue - State: open - Opened by EpiMuri about 1 month ago

#40 - Train a R10 model

Issue - State: open - Opened by EpiMuri 6 months ago - 5 comments
Labels: enhancement

#39 - input signal data of deepsignal

Issue - State: open - Opened by sengelen 7 months ago - 2 comments

#38 - Use multiple GPU at the same time

Issue - State: closed - Opened by sengelen 8 months ago - 5 comments

#37 - tombo resquiggle produces unexpected error

Issue - State: closed - Opened by skranz0 9 months ago - 2 comments

#36 - Will deep-signal plant accept remora?

Issue - State: open - Opened by vidsvur 9 months ago - 1 comment
Labels: enhancement

#35 - All fast5 files failed when perform call_mods

Issue - State: open - Opened by yxlong-science 11 months ago - 6 comments

#34 - Revert "Bump scipy from 1.7.3 to 1.10.0"

Pull Request - State: closed - Opened by PengNi 11 months ago

#33 - Error Added sequences to a total of 0 reads.

Issue - State: open - Opened by luckyvivi 11 months ago - 1 comment

#32 - two questions

Issue - State: open - Opened by zmz1988 12 months ago - 1 comment

#31 - Bump scipy from 1.7.3 to 1.10.0

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago
Labels: dependencies

#30 - 无法提取原始的fast5文件的特征

Issue - State: open - Opened by u973808046 about 1 year ago

#29 - updated pipeline relying on pod5 file format?

Issue - State: open - Opened by AlineMuyle over 1 year ago - 11 comments
Labels: enhancement

#28 - call_mods hangs indefinitely

Issue - State: closed - Opened by SwiftSeal over 1 year ago - 4 comments

#27 - Update environment.yml

Pull Request - State: closed - Opened by SwiftSeal over 1 year ago - 1 comment

#26 - Megalodon Model

Issue - State: open - Opened by jcolicchio-soundag over 1 year ago

#25 - tombo resquiggle crashes, ont-vbz-hdf-plugin did not help

Issue - State: closed - Opened by HeLi-80 over 1 year ago - 2 comments

#24 - cannot find cuda

Issue - State: closed - Opened by fayweili about 2 years ago - 1 comment

#23 - `MemoryError` in call_mods

Issue - State: closed - Opened by WeipengMO about 2 years ago - 2 comments

#22 - pod5/slow5 support

Issue - State: closed - Opened by PengNi about 2 years ago - 2 comments

#21 - Fast5s failing - no mods called

Issue - State: closed - Opened by acread about 2 years ago - 2 comments

#20 - Using updated nanopore flowcells for Arabidopsis ?

Issue - State: open - Opened by JBerthelier about 2 years ago - 5 comments
Labels: enhancement

#19 - Microalgae model

Issue - State: open - Opened by simonbrd over 2 years ago - 18 comments

#18 - Help runtime

Issue - State: closed - Opened by simonbrd over 2 years ago - 4 comments

#17 - "struct.error" during running call_mods

Issue - State: open - Opened by Musketeer-D over 2 years ago - 2 comments
Labels: bug

#16 - tabix/pytabix/gzip support to lower memory/speed up call_freq step

Issue - State: open - Opened by PengNi over 2 years ago - 2 comments

#15 - disable reference_genome input and pos_in_strand output in call_mods module

Issue - State: closed - Opened by PengNi over 2 years ago - 3 comments

#14 - tombo annotate failed

Issue - State: open - Opened by PengNi over 2 years ago

#13 - scripts for haplotype-specific DNA methylation

Issue - State: open - Opened by PengNi over 2 years ago
Labels: enhancement

#12 - material used for Nanopore sequencing in order to use DeepSignal

Issue - State: closed - Opened by anani1994 over 2 years ago

#11 - modify call_freq module for large genomes

Issue - State: closed - Opened by PengNi over 2 years ago - 2 comments
Labels: enhancement

#10 - add docker container

Issue - State: open - Opened by PengNi almost 3 years ago - 1 comment
Labels: enhancement

#9 - modbam format support

Issue - State: open - Opened by PengNi almost 3 years ago - 1 comment
Labels: enhancement

#8 - Error when running call_mods

Issue - State: closed - Opened by Naish-M about 3 years ago - 11 comments
Labels: enhancement

#7 - tombo preprocess annotate_raw_with_fastqs

Issue - State: closed - Opened by olmath about 3 years ago - 15 comments

#6 - call_mods on gpu

Issue - State: closed - Opened by MunissaSadykova about 3 years ago - 9 comments

#5 - use tombo API

Issue - State: closed - Opened by PengNi about 3 years ago - 2 comments

#4 - NotImplementedError

Issue - State: closed - Opened by jcolicchio-soundag about 3 years ago - 2 comments

#3 - multiprocessing and pytorch

Issue - State: closed - Opened by PengNi over 3 years ago - 1 comment

#2 - add tqdm for verbose

Issue - State: open - Opened by PengNi over 3 years ago - 3 comments
Labels: enhancement

#1 - add initial-model option in training module

Issue - State: closed - Opened by PengNi over 3 years ago - 1 comment
Labels: enhancement

GitHub / PengNi/deepsignal-plant issues and pull requests