eggnog-mapper

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when i run the command " emapper.py -i hap1_protein.fasfa --output xx1 --override --cpu 10 --decorate_gff xx.gff3"

9

when i run the command " emapper.py -i hap1_protein.fasfa --output xx1 --override --cpu 10 --decorate_gff xx.gff3" the xx.gff3 was maked by the evm and update with the funatation. but its...

Jiangjiangzhang6

when run the eggNOG-mapper with the command "emapper.py -i hap1_protein.fasfa --itype proteins --output hap1 -d euk"

8

its show the error with the bug  Error running diamond: Masking reference... how could I solve the error, thank you

Jiangjiangzhang6

Run against legacy eggnog_3.0

1

Hi, Thanks for the great tool! For legacy reasons, is it possible to run emapper on eggnog_3.0? If yes, how to do so? Many thanks for your help!

matthpich

hmm database error for taxid 1

1

Hi, I am trying to download all hmmer databases. Taxid 1 has the corrupted data, which could not be finished. All the rest taxid were well proceeded. Could you please...

xianzheUM

too many GO annotations

6

Hi. I got puzzled when using do GO functional annotation to do enrichment. In many cases, one gene got a lot of GO ids in the results, more than the...

biomichal

cpu count vs available cpus for a process

1

Hello, some tools uses `multiprocessing.cpu_count()` to ge the number of cpus. `multiprocessing.cpu_count()` return the number of cpu in the machine, But this is not the same as the number of...

EricDeveaud

quite different results while running emapper.py with or without "--tax_scope" option

4

Dear all, I want to build a personal species packages, and use for annotation with clusterProfiler. Since I run emapper.py with and without "--tax_scope" option, I got quite different results,...

QianghuiZhu

No BiGG reactions found

1

Hello! I want to use eggnog-mapper (web-version) output to build genome-scale metabolic model via CarveMe tool so I am interested in BiGG reaction ids. For some reason no bigg reaction...

MEKGG

Error using eggnog mapper web.

1

Hello! I'm trying to use eggnog mapper wep (http://eggnog-mapper.embl.de/). But there are two problems. 1. I was unable to submit genomic data successfully. (There is a circle turning all the...

FuyuanQ

Three error messages in emapper.py referenced "download_eggnog_database.py". It should be "download_eggnog_data.py"

ejrsimr