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bcgsc
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NanoSim
Nanopore sequence read simulator
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head_vs_ht_ratio = head_vs_ht_ratio_list[each_read] IndexError: list index out of range
#228
huangxin0221
opened
2 days ago
1
`fit_lognorm` expects `_base_qualities_model_parameters.tsv`, however the characterization stage does not return this file
#227
ezherman
closed
4 days ago
1
`aligner` option missing from `metagenome` characterization mode
#226
ezherman
opened
4 days ago
1
KeyError: "tag 'MD' not present"
#225
mochew
opened
6 days ago
5
Prepare for v3.2.1 release
#224
lcoombe
closed
2 weeks ago
0
Fix base quality characterization in chimeric mode
#223
lcoombe
closed
2 weeks ago
0
Fixing characterization stage for genome and metagenome mode with --fastq
#222
lcoombe
closed
2 weeks ago
1
How to simulate amplicon-seq data?
#221
capoony
opened
3 weeks ago
0
Error evaluating base qualities with `read_analysis.py`
#220
capoony
closed
2 weeks ago
3
Minimap2 version (2.11) co-installed with conda without `--cs` parameter
#219
capoony
closed
3 weeks ago
3
docs: update and amend simulation stage output file explanations
#218
dlaehnemann
opened
4 weeks ago
0
Homopolymer basequal characterization
#217
SaberHQ
closed
1 month ago
0
Simulation of Rolling Circle Amplification Data
#216
Le1223
closed
1 month ago
3
No such file or directory: 'training_ht_length.pkl'
#215
kubracelikbas
closed
1 month ago
4
output different replicates of a sample
#214
zzare-umd
closed
1 month ago
1
Variation in relative abundances of simulated Zymo mock microbes
#213
ezherman
opened
2 months ago
1
Effect of `-b` in metagenome mode
#212
ezherman
closed
1 month ago
5
gzip intermediate fastq files
#211
nicolo-tellini
opened
2 months ago
0
Stuck at the simulation step
#210
HLHsieh
opened
2 months ago
5
Reading the simulated_aligned_reads
#209
Evandio-Martin
closed
1 month ago
3
Failure in using Nanosim for transcriptome (ValueError: file does not contain alignment data)
#208
aerusakovich
opened
4 months ago
0
Questions about the usage and processing of the expression profile
#207
joyceFunk123
opened
5 months ago
1
Can't install Nanosim
#206
aerusakovich
closed
5 months ago
2
Coverage breadth following metagenome characterization
#205
ezherman
closed
5 months ago
2
How to find reference genome for pre-trained models
#204
Evandio-Martin
closed
5 months ago
2
Installation error
#203
mfbeuq
closed
7 months ago
4
IndexError: list index out of range
#202
weishwu
opened
7 months ago
4
Support for Dorado?
#201
weishwu
closed
6 months ago
2
Options / suggestions for how to simulate nCats data?
#200
tfenne
opened
10 months ago
1
Fix infinite loop for very short references
#199
kmnip
closed
10 months ago
1
Models for newer versions of Guppy with sup basecalls
#198
hasindu2008
opened
12 months ago
3
Rbk mode
#197
GeorgetteTanner
opened
1 year ago
0
Rbk mode
#196
GeorgetteTanner
closed
1 year ago
0
NanoSim for tuning Minimap2 parameters?
#195
ammaraziz
closed
3 months ago
2
simulator.py genome FileNotFoundError: [Errno 2] No such file or directory: 'training_model_profile'
#194
MAXINELSX
closed
3 minutes ago
2
Stuck at simulation stage
#193
kainth-amoldeep
opened
1 year ago
4
Update readme and help info
#192
kmnip
closed
1 year ago
0
Please specify the training reads and its reference genome!
#191
kainth-amoldeep
closed
1 year ago
3
ValueError: Found array with 0 sample(s) (shape=(0, 1)) while a minimum of 1 is required.
#190
Dr-bioinfo
opened
1 year ago
6
Potential bug-fixes for infinite loops in metagenome mode
#189
kmnip
closed
1 year ago
0
Option to specify desired read coverage or sequencing depth
#188
HLHsieh
opened
1 year ago
2
Models for R10.3 or R10.4 flow cell
#187
zhenLiuXplr
closed
1 minute ago
1
Transcriptome mode error rate tsv explanation
#186
kosmasgal
closed
1 year ago
2
Infinite loop in function extract_reads in metagenome mode when length equals max length
#185
danpal96
opened
1 year ago
2
Nanosim hangs in the middle
#184
aastha-batta
opened
1 year ago
18
file has no sequences defined (mode='r') - is it SAM/BAM format? Consider opening with check_sq=False
#183
jackchen129
closed
1 year ago
1
mis.hist missing when running characterization stage
#182
lhnguye4
closed
1 year ago
0
Invalid fastq format
#181
xinehc
closed
1 year ago
4
Can NanoSim be applied to simulate single cell Nanopore reads
#180
yuntianf
opened
1 year ago
1
hangs at start of simulation
#179
omarkr8
closed
4 minutes ago
6
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