CAMI-challenge CAMISIM issues

CAMI-challenge / CAMISIM

CAMISIM: Simulating metagenomes and microbial communities

https://data.cami-challenge.org/participate

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issues

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Using CAMISIM v2.0 to generate metagenomes but the storage run out when generating reads using art

#200 Andyargueasae opened 5 days ago
3
Error in bam file list in line 106

#199 SMontesinos opened 1 week ago
0
Skipping genomes and empty bam file list in line 106

#198 SMontesinos closed 1 week ago
2
Hi,

#197 HAJRA-sys opened 3 weeks ago
0
Simulating 16S metabarcoding reads?

#196 marieleoz opened 1 month ago
3
Missing main.nf

#195 mortonjt opened 1 month ago
1
Guidance on Simulating Metatranscriptomes for CAMI 2 Challenge Short-Read Metagenomes

#194 ohickl opened 2 months ago
1
Changing read lengths from the default 150bp

#193 cberta11 opened 4 months ago
1
metagenomesimulation.py raising "ERROR: [MetagenomeSimulationPipeline] 'gb|*********.1|:1-****' in line 117" Error

#192 cberta11 closed 4 months ago
3
NoneType path error when trying to run metagenome_from_profile.py from default_config.ini

#191 cberta11 opened 4 months ago
3
Handling coverage

#190 CorvusVaine opened 5 months ago
0
Confused by the abundance values in the CAMI2 toy datasets

#189 TakacsBertalan closed 5 months ago
1
the data type of CAMISIM long read dataset

#188 zwh82 closed 7 months ago
1
Controlling the rate of error

#187 mahmudhera closed 5 months ago
1
Generation from different genome for same specie

#186 CorvusVaine closed 5 months ago
4
How to map relevant genomes to OTU through scientific names？

#185 fanqiedantang closed 5 months ago
11
Could not find workflow.nf in the repo.

#184 ravinpoudel closed 4 months ago
5
camisim encountered an error when specifying the --hmm_model parameter in pbsim2

#183 zwh82 closed 4 months ago
3
No file found for all the reads of the sample in the output

#182 shussin245 closed 10 months ago
2
how to increase the size of the simulated dataset?

#181 fanqiedantang closed 10 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 10 months ago
3
How can I simulate reads data when I manually designed an OTU table?

#179 fanqiedantang closed 5 months ago
4
Errors when running from_profile default

#178 CassandraHjo closed 11 months ago
8
Is profile-based design with custom genomes possible?

#177 CassandraHjo closed 5 months ago
11
Meaning of community parameters in config file

#176 CassandraHjo closed 11 months ago
1
ERROR: [MetagenomeSimulationPipeline] 'M' in line 122

#175 kangxiongbin closed 4 months ago
4
Input genomes

#174 CassandraHjo closed 11 months ago
3
Changing temp_directory in config file

#173 CassandraHjo closed 1 year ago
4
some error when i try the command ---- "python metagenome_form_profile.py -p defaults/mini.biom "

#172 fanqiedantang closed 11 months ago
1
should i download all the reference genomes of the species involved in the BIOM file？

#171 fanqiedantang closed 11 months ago
1
Hi,I still cant understand what "adundance" means …………

#170 NickShanyt closed 11 months ago
1
Error running simulation using custom genomes

#169 CassandraHjo closed 1 year ago
1
metagenome simulation

#168 lcamelo10 closed 1 year ago
2
Question, is there any existing repository.

#167 shanoudi closed 1 year ago
7
2023-10-10 23:40:29 ERROR: [MetagenomeSimulationPipeline] 'Salmonella_enterica_Typhimurium_1898' in line 83

#166 icbarron closed 1 year ago
4
the details in simulating the madness dataset of CAMI II by CAMISIM

#165 fanqiedantang closed 1 year 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 1 year ago
4
Some problems occur when I run “python metagenomesimulation.py defaults/mini_config.ini”

#162 fanqiedantang closed 1 year ago
8
A problem in testing one commond in the wiki

#161 fanqiedantang closed 1 year 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