Ecosyste.ms: Issues

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GitHub / marcus1487/nanoraw issues and pull requests

#60 - Why my data didn't have this attribute?

Issue - State: closed - Opened by omegahh over 5 years ago - 1 comment

#59 - problem with genome_resquiggle

Issue - State: closed - Opened by lfaino over 5 years ago

#58 - problem with installation

Issue - State: closed - Opened by lfaino over 5 years ago - 1 comment

#57 - corrected group is empty

Issue - State: closed - Opened by smm19900210 almost 6 years ago

#56 - basecall-group or Analyses group does not exist.

Issue - State: closed - Opened by smm19900210 almost 6 years ago

#55 - Running nanoraw

Issue - State: closed - Opened by ahmirza about 6 years ago - 1 comment

#54 - nanoraw superseded by Tombo

Issue - State: closed - Opened by tillbaar about 6 years ago

#53 - The meanings of "--statistics-filename"

Issue - State: closed - Opened by liuqianhn over 6 years ago - 4 comments

#51 - Alignment not produced error and a potential bug

Issue - State: closed - Opened by haotianteng over 6 years ago - 2 comments

#50 - Nanoraw ignores moves longer than one

Issue - State: closed - Opened by rasto2211 over 6 years ago - 8 comments

#49 - genome_resquiggle problem

Issue - State: closed - Opened by yasukoh over 6 years ago - 1 comment

#48 - mapping raw or normalized signal without called events

Issue - State: closed - Opened by al2na over 6 years ago - 1 comment

#46 - Suggest minimap2 as option

Issue - State: closed - Opened by timp0 almost 7 years ago - 2 comments

#45 - Problem with mapping when using genome_resquiggle

Issue - State: closed - Opened by awjga almost 7 years ago

#44 - explanation of genome_alignment, read_alignment, read_segments and Events

Issue - State: closed - Opened by liuqianhn almost 7 years ago - 3 comments

#43 - Nanoraw index

Issue - State: open - Opened by marcus1487 almost 7 years ago
Labels: enhancement

#42 - test data

Issue - State: open - Opened by osilander almost 7 years ago - 2 comments

#41 - fast5s not found within subfolders

Issue - State: closed - Opened by scottgigante about 7 years ago - 5 comments

#40 - Add heterozygosity test

Issue - State: open - Opened by marcus1487 about 7 years ago - 1 comment
Labels: enhancement

#39 - Start_time not present in fast5

Issue - State: closed - Opened by usamec about 7 years ago - 4 comments

#38 - Nanoraw error

Issue - State: closed - Opened by Subhi about 7 years ago - 5 comments

#37 - plot error

Issue - State: closed - Opened by athulmenon about 7 years ago - 2 comments

#36 - no data in corrected-group

Issue - State: closed - Opened by sathishkumarRamaswamy about 7 years ago - 3 comments

#35 - Execution failure

Issue - State: closed - Opened by cjwoodruff50 over 7 years ago - 8 comments

#34 - Motif plotting subcommands strand issues

Issue - State: open - Opened by marcus1487 over 7 years ago

#33 - plot_max_coverage question

Issue - State: closed - Opened by MikeHala over 7 years ago - 4 comments

#32 - R7.3

Issue - State: open - Opened by JohnUrban over 7 years ago - 3 comments

#31 - Add support for other mappers (BWA-MEM; last)

Issue - State: closed - Opened by marcus1487 over 7 years ago - 1 comment
Labels: enhancement

#30 - New function to produce suite of wiggle files

Issue - State: closed - Opened by marcus1487 over 7 years ago
Labels: enhancement

#29 - compress nanoraw fast5 data

Issue - State: closed - Opened by marcus1487 over 7 years ago

#28 - Extracting fasta/fastq from corrected reads?

Issue - State: closed - Opened by danarte over 7 years ago - 1 comment

#27 - k-mer signal for up- and down-stream number of bases

Issue - State: closed - Opened by marcus1487 over 7 years ago

#26 - Clarification about some plots

Issue - State: closed - Opened by danarte over 7 years ago - 1 comment

#25 - Batch graphmap calls

Issue - State: closed - Opened by marcus1487 over 7 years ago
Labels: enhancement

#24 - use move slot instead of checking actual matching model_states

Issue - State: closed - Opened by marcus1487 over 7 years ago
Labels: bug

#23 - Support multiple normalizations

Issue - State: closed - Opened by marcus1487 over 7 years ago - 1 comment
Labels: duplicate, enhancement

#22 - Allow different normalization methods

Issue - State: closed - Opened by marcus1487 over 7 years ago
Labels: enhancement

#21 - plot corrections for several reads anchroed by genomic position

Issue - State: closed - Opened by marcus1487 over 7 years ago
Labels: enhancement

#20 - Better subcommands

Issue - State: closed - Opened by marcus1487 over 7 years ago
Labels: enhancement

#19 - fix filename parameter in correct_raw_data method

Pull Request - State: closed - Opened by mdcao over 7 years ago - 1 comment

#18 - correctly handle ambiguous indels

Issue - State: closed - Opened by marcus1487 over 7 years ago - 1 comment
Labels: bug

#17 - Off by one plotting coordinates

Issue - State: closed - Opened by marcus1487 over 7 years ago
Labels: bug

#16 - Should add an option to correct and investigate complement (in sequencing) reads

Issue - State: closed - Opened by marcus1487 over 7 years ago - 1 comment
Labels: enhancement

#15 - Added stranded option for write_wiggle function

Issue - State: closed - Opened by marcus1487 over 7 years ago
Labels: enhancement

#14 - plotting to display corrections

Issue - State: closed - Opened by marcus1487 over 7 years ago - 1 comment

#13 - Create kmer model from run

Issue - State: open - Opened by marcus1487 over 7 years ago
Labels: enhancement

#12 - Missing license

Issue - State: closed - Opened by druvus over 7 years ago - 2 comments

#11 - Downsample overplot option

Issue - State: closed - Opened by marcus1487 over 7 years ago
Labels: enhancement

#10 - Blacklist regions

Issue - State: open - Opened by marcus1487 almost 8 years ago
Labels: enhancement

#9 - Create raw signal reference

Issue - State: open - Opened by marcus1487 almost 8 years ago
Labels: enhancement

#8 - Add boxplot option for overplotting

Issue - State: closed - Opened by marcus1487 almost 8 years ago - 1 comment

#7 - Add wiggle output from coverage plotting script

Issue - State: closed - Opened by marcus1487 almost 8 years ago

#6 - Allow selection of some files via a pattern

Issue - State: closed - Opened by marcus1487 almost 8 years ago

#5 - Turn into actual python package

Issue - State: closed - Opened by marcus1487 almost 8 years ago

#4 - Add new plotting region selection options

Issue - State: closed - Opened by marcus1487 almost 8 years ago - 2 comments

#3 - complete kmer plotting

Issue - State: closed - Opened by marcus1487 almost 8 years ago - 1 comment

#2 - plot_signal overplotting

Issue - State: closed - Opened by marcus1487 almost 8 years ago - 1 comment

#1 - Optimize correction script

Issue - State: closed - Opened by marcus1487 almost 8 years ago - 1 comment