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bcgsc
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NanoSim
Nanopore sequence read simulator
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Metagenomic mode Help with read_analysis.py
#240
florenmartino
opened
1 day ago
1
Feature Request: Checking Input-files
#239
SimonHegele
opened
3 days ago
1
Add new pre-trained models for metagenome and transcriptome modes
#238
lcoombe
closed
2 weeks ago
0
Transcript ID in reference and expression profile do not match
#237
SimonHegele
opened
3 weeks ago
8
How many threads and memories required at training stage?
#236
yaoxkkkkk
opened
1 month ago
1
Prepare for release v3.2.2
#235
lcoombe
closed
1 month ago
0
Fixes for -min and -max parameters
#234
lcoombe
closed
1 month ago
0
Extend lists for simulation in genome mode to avoid IndexError
#233
lcoombe
closed
1 month ago
0
Fix for abundance deviation in metagenome mode
#232
lcoombe
closed
1 month ago
0
Use more keywords for arguments to alignment functions
#231
lcoombe
closed
1 month ago
0
Fixes for transcriptome and metagenome modes
#230
lcoombe
closed
1 month ago
0
GPL3 and commercial license
#229
james-vincent
closed
1 month ago
2
head_vs_ht_ratio = head_vs_ht_ratio_list[each_read] IndexError: list index out of range
#228
huangxin0221
opened
1 month ago
4
`fit_lognorm` expects `_base_qualities_model_parameters.tsv`, however the characterization stage does not return this file
#227
ezherman
closed
1 month ago
1
`aligner` option missing from `metagenome` characterization mode
#226
ezherman
closed
1 month ago
6
KeyError: "tag 'MD' not present"
#225
mochew
opened
1 month ago
5
Prepare for v3.2.1 release
#224
lcoombe
closed
2 months ago
0
Fix base quality characterization in chimeric mode
#223
lcoombe
closed
2 months ago
0
Fixing characterization stage for genome and metagenome mode with --fastq
#222
lcoombe
closed
2 months ago
1
How to simulate amplicon-seq data?
#221
capoony
opened
2 months ago
0
Error evaluating base qualities with `read_analysis.py`
#220
capoony
closed
2 months ago
3
Minimap2 version (2.11) co-installed with conda without `--cs` parameter
#219
capoony
closed
2 months ago
3
docs: update and amend simulation stage output file explanations
#218
dlaehnemann
opened
2 months ago
0
Homopolymer basequal characterization
#217
SaberHQ
closed
3 months ago
0
Simulation of Rolling Circle Amplification Data
#216
Le1223
closed
3 months ago
3
No such file or directory: 'training_ht_length.pkl'
#215
kubracelikbas
closed
3 months ago
4
output different replicates of a sample
#214
zzare-umd
closed
3 months ago
1
Variation in relative abundances of simulated Zymo mock microbes
#213
ezherman
closed
1 month ago
7
Effect of `-b` in metagenome mode
#212
ezherman
closed
3 months ago
5
gzip intermediate fastq files
#211
nicolo-tellini
opened
4 months ago
0
Stuck at the simulation step
#210
HLHsieh
opened
4 months ago
5
Reading the simulated_aligned_reads
#209
Evandio-Martin
closed
2 months ago
3
Failure in using Nanosim for transcriptome (ValueError: file does not contain alignment data)
#208
aerusakovich
opened
6 months ago
0
Questions about the usage and processing of the expression profile
#207
joyceFunk123
opened
7 months ago
1
Can't install Nanosim
#206
aerusakovich
closed
7 months ago
2
Coverage breadth following metagenome characterization
#205
ezherman
closed
7 months ago
2
How to find reference genome for pre-trained models
#204
Evandio-Martin
closed
7 months ago
2
Installation error
#203
mfbeuq
closed
9 months ago
4
IndexError: list index out of range
#202
weishwu
opened
9 months ago
4
Support for Dorado?
#201
weishwu
closed
8 months ago
2
Options / suggestions for how to simulate nCats data?
#200
tfenne
opened
11 months ago
1
Fix infinite loop for very short references
#199
kmnip
closed
11 months ago
1
Models for newer versions of Guppy with sup basecalls
#198
hasindu2008
opened
1 year ago
7
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
5 months ago
2
simulator.py genome FileNotFoundError: [Errno 2] No such file or directory: 'training_model_profile'
#194
MAXINELSX
closed
1 month 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
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