issues
search
CAMI-challenge
/
CAMISIM
CAMISIM: Simulating metagenomes and microbial communities
https://data.cami-challenge.org/participate
Apache License 2.0
167
stars
37
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Guidance on Simulating Metatranscriptomes for CAMI 2 Challenge Short-Read Metagenomes
#194
ohickl
opened
3 weeks ago
1
Changing read lengths from the default 150bp
#193
cberta11
opened
2 months ago
1
metagenomesimulation.py raising "ERROR: [MetagenomeSimulationPipeline] 'gb|*********.1|:1-****' in line 117" Error
#192
cberta11
closed
2 months ago
3
NoneType path error when trying to run metagenome_from_profile.py from default_config.ini
#191
cberta11
opened
2 months ago
3
Handling coverage
#190
CorvusVaine
opened
3 months ago
0
Confused by the abundance values in the CAMI2 toy datasets
#189
TakacsBertalan
closed
3 months ago
1
the data type of CAMISIM long read dataset
#188
zwh82
closed
5 months ago
1
Controlling the rate of error
#187
mahmudhera
closed
3 months ago
1
Generation from different genome for same specie
#186
CorvusVaine
closed
3 months ago
4
How to map relevant genomes to OTU through scientific names？
#185
fanqiedantang
closed
3 months ago
11
Could not find workflow.nf in the repo.
#184
ravinpoudel
closed
2 months ago
5
camisim encountered an error when specifying the --hmm_model parameter in pbsim2
#183
zwh82
closed
2 months ago
3
No file found for all the reads of the sample in the output
#182
shussin245
closed
8 months ago
2
how to increase the size of the simulated dataset?
#181
fanqiedantang
closed
8 months ago
1
ERROR: [MetagenomeSimulationPipeline] 'utf-8' codec can't decode byte 0x8b in position 1: invalid start byte in line 49？
#180
fanqiedantang
closed
8 months ago
3
How can I simulate reads data when I manually designed an OTU table?
#179
fanqiedantang
closed
3 months ago
4
Errors when running from_profile default
#178
CassandraHjo
closed
9 months ago
8
Is profile-based design with custom genomes possible?
#177
CassandraHjo
closed
3 months ago
11
Meaning of community parameters in config file
#176
CassandraHjo
closed
9 months ago
1
ERROR: [MetagenomeSimulationPipeline] 'M' in line 122
#175
kangxiongbin
closed
2 months ago
4
Input genomes
#174
CassandraHjo
closed
9 months ago
3
Changing temp_directory in config file
#173
CassandraHjo
closed
10 months ago
4
some error when i try the command ---- "python metagenome_form_profile.py -p defaults/mini.biom "
#172
fanqiedantang
closed
9 months ago
1
should i download all the reference genomes of the species involved in the BIOM file？
#171
fanqiedantang
closed
9 months ago
1
Hi,I still cant understand what "adundance" means …………
#170
NickShanyt
closed
9 months ago
1
Error running simulation using custom genomes
#169
CassandraHjo
closed
11 months ago
1
metagenome simulation
#168
lcamelo10
closed
11 months ago
2
Question, is there any existing repository.
#167
shanoudi
closed
11 months ago
7
2023-10-10 23:40:29 ERROR: [MetagenomeSimulationPipeline] 'Salmonella_enterica_Typhimurium_1898' in line 83
#166
icbarron
closed
11 months ago
4
the details in simulating the madness dataset of CAMI II by CAMISIM
#165
fanqiedantang
closed
10 months ago
12
attempting to simulate viral community, continue to encounter an error
#164
icbarron
closed
1 year ago
5
How to speed up the microbiome simulation process using CamiSim
#163
YunyunGao374
closed
11 months ago
4
Some problems occur when I run “python metagenomesimulation.py defaults/mini_config.ini”
#162
fanqiedantang
closed
10 months ago
8
A problem in testing one commond in the wiki
#161
fanqiedantang
closed
11 months ago
1
"ncbi_taxdump=tools/ncbi-taxonomy_20170222.tar.gz" Unsupported newer version.
#160
NickShanyt
closed
1 year ago
10
Create Python package and conda recipe?
#159
vinisalazar
closed
1 year ago
2
Error free illumina reads
#158
Paupiera
closed
1 year ago
1
Unable to download Mouse Toy dataset
#157
richardlett
closed
1 year ago
1
Data availability for CAMISIM Figure 3
#156
paulinetrinh
closed
1 year ago
2
ERROR: [MetagenomeSimulationPipeline] could not convert string to float: 'abundance' in line 80
#155
prototaxites
closed
1 year ago
2
"Population must be a sequence. For dicts or sets, use sorted(d). in line 83" [Python 3.11 compatibility?]
#154
prototaxites
opened
1 year ago
4
Question about {out}/anonymous_gsa_pooled.fasta file and its corresponding bam file
#153
Steven-GUHK
closed
1 year ago
4
ERROR: [MetagenomeSimulationPipeline] 'MGV-GENOME-0364315' in line 117
#152
Steven-GUHK
closed
1 year ago
2
[MetagenomeSimulationPipeline] Required file not found! Was design of communities not completed?
#151
Louis-MG
closed
1 year ago
1
[MetagenomeSimulationPipeline] Empty bam file list in line 106
#150
Louis-MG
opened
1 year ago
5
Problem trying to run metagenome_from_profile.py with docker. Is python3 update completed?
#149
MateDuda
opened
1 year ago
2
Error on nanosim_profile while running with NanoSim
#148
eparisis
closed
1 year ago
6
test run
#147
eo24a
closed
1 year ago
0
CVE-2007-4559 Patch
#146
TrellixVulnTeam
closed
1 year ago
0
Simulating diverse strains from a single OTU
#145
HarrisonTrethowan41
closed
1 year ago
4
Next