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nanoporetech
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modkit
A bioinformatics tool for working with modified bases
https://nanoporetech.com/
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Where does P(canonical) come from?
#219
lkwhite
opened
1 day ago
2
`find-motifs` fails to load before_file
#218
Ge0rges
closed
4 days ago
2
Problem interpretating table
#217
MarioRinBarr
opened
1 week ago
5
bedMethyl file has no motif information
#216
uuwuyi
opened
1 week ago
7
extract options
#215
Baix7
closed
4 days ago
4
entropy vs sequencing depth/CG content
#214
ywang285
opened
1 week ago
3
Contig names source
#213
Ge0rges
closed
1 week ago
2
Diffrent threshold from dorado models
#212
Macdot3
opened
1 week ago
3
Zero reads in index error
#211
setshabaTaukobong
opened
1 week ago
3
bedgraph and bedmethyl only-tab simultaneously
#210
ShokodkoMariia
opened
1 week ago
2
Error! Parsing Error: Error { input: "m\t1", code: Digit }
#209
saky7009
opened
1 week ago
3
Getting error when running modkit dmr pair
#208
agoel13
closed
4 days ago
5
dmr multi failed to load samples
#207
nickst85
closed
2 days ago
6
How to generate hydroxymethylation in pileup?
#206
weishwu
closed
1 week ago
9
Multi-base entropy
#205
Ge0rges
opened
2 weeks ago
1
`pileup` output both bedMethyl and bedGraph
#204
Ge0rges
closed
2 weeks ago
2
Bug in `find_motifs`
#203
Ge0rges
closed
2 weeks ago
6
modkit call-mods omits all modification information for many RNA004 reads
#202
pre-mRNA
closed
4 days ago
5
Does pileup always output a value for a covered base?
#200
Ge0rges
closed
2 weeks ago
3
Can you please suggest me ..How can I visualized differential methylation result?
#199
saky7009
opened
3 weeks ago
3
Automated filter threshold set to 1 for pileup and questions about thresholding
#198
kylepalos
closed
3 weeks ago
4
Error writing results of find-motifs
#197
SorenHeidelbach
closed
3 weeks ago
1
CpG Calling with Reference
#196
SophieValk
closed
2 weeks ago
2
Output tsv has some minor code duplication issues in find-motif code part.
#195
bgdga
closed
3 weeks ago
4
API for modkit extract read_calls_path output?
#194
billytcl
closed
2 weeks ago
8
pseudouridylation extracting
#193
Papareddy
closed
4 days ago
3
Are all CpG reported ?
#192
OceaneMion
opened
1 month ago
7
Clarifications on DMR Analysis
#191
Proy321
opened
1 month ago
12
How does Modkit handle Large Genome Data?
#190
Yang990-sys
opened
1 month ago
5
Error! should be at least 1 contig
#189
james-e-barrett
closed
1 month ago
3
p values using regions option
#188
lucy924
closed
1 month ago
3
error: unrecognized subcommand 'find-motifs' (Find highly modified motif sequences)
#187
saky7009
closed
4 days ago
3
Calling 5hmC
#186
KevDonn
closed
1 month ago
4
how to allele-specific methylation calling?
#185
sahuno
closed
1 month ago
2
Does modkit --traditional take into account reverse CpG spots?
#184
mvolar
closed
1 month ago
2
DMR without pileup
#183
ArnavBharti
opened
1 month ago
4
modkit pileup incorrect column name?
#182
josiegleeson
closed
1 month ago
1
What is exactly mod_qual?
#181
OceaneMion
opened
1 month ago
3
Error during installation
#180
molecule53
closed
1 month ago
7
num-reads not working
#179
ShokodkoMariia
opened
1 month ago
3
modkit dmr - failed to read tabix index
#178
lilypeck
opened
1 month ago
6
Validation with ground truth
#177
vyx-lucy-kaplun
opened
1 month ago
2
Ign.
#176
Ge0rges
closed
1 month ago
0
DMR: processed 0 sites successfully
#175
Hannah1746
closed
2 months ago
3
Perform DMR analysis on the same file
#174
OceaneMion
opened
2 months ago
3
Obtain Global methylation level of the genome
#173
OceaneMion
opened
2 months ago
9
How to detect the background noise from control and test samples
#172
xiangpingyu
opened
2 months ago
2
Error! zero reads found in bam index
#171
habibsaky
closed
2 months ago
5
Not all genomic position represented
#170
OceaneMion
closed
2 months ago
4
Error! unable to open SAM/BAM/CRAM index
#169
habibsaky
closed
2 months ago
8
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