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edna
snakemake_rapidrun_obitools
Commits
653eaef8
Commit
653eaef8
authored
Jul 27, 2020
by
peguerin
Browse files
config tutorial file
parent
8009c3cb
Changes
1
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config/config_tutorial_rapidrun.yaml
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653eaef8
singularity
:
ednatools
:
/usr/local/containers/ednatools.simg
obitools
:
/usr/local/containers/obitools.simg
fichiers
:
rapidrun
:
../resources/tutorial/tutorial_rapidrun_data/ngs/testmaleplofakarava/rapidrun_metadata/malpelo_fakarava_all_samples.tsv
folder_fastq
:
../resources/tutorial/tutorial_rapidrun_data/ngs/testmaleplofakarava/runs/
dat
:
mamm
:
../resources/tutorial/tutorial_rapidrun_data/ngs/testmaleplofakarava/rapidrun_metadata/Mamm.dat
teleo
:
../resources/tutorial/tutorial_rapidrun_data/ngs/testmaleplofakarava/rapidrun_metadata/Teleo.dat
chond
:
../resources/tutorial/tutorial_rapidrun_data/ngs/testmaleplofakarava/rapidrun_metadata/Chond.dat
vert
:
../resources/tutorial/tutorial_rapidrun_data/ngs/testmaleplofakarava/rapidrun_metadata/Vert.dat
blacklist
:
projet
:
-
dummy_run
run
:
-
180430_SN234_A_L001_AIMI-9
-
180504_SND405_A_L001_AIMI-10
-
180504_SND405_A_L002_AIMI-11
illuminapairedend
:
nb_chunk
:
0
s_min
:
40
good_length_samples
:
seq_count
:
1
seq_length_min
:
23
clean_pcrerr_samples
:
r
:
0.05
assign_taxon
:
bdr
:
mamm
:
../resources/tutorial/tutorial_rapidrun_data/bdr/reference_database_mamm/embl_std
teleo
:
../resources/tutorial/tutorial_rapidrun_data/bdr/reference_database_teleo/embl_std
chond
:
../resources/tutorial/tutorial_rapidrun_data/bdr/embl_std
vert
:
../resources/tutorial/tutorial_rapidrun_data/bdr/embl_std
fasta
:
mamm
:
../resources/tutorial/tutorial_rapidrun_data/bdr/db_embl_std.fasta
teleo
:
../resources/tutorial/tutorial_rapidrun_data/bdr/db_embl_std.fasta
chond
:
../resources/tutorial/tutorial_rapidrun_data/bdr/db_embl_std.fasta
vert
:
../resources/tutorial/tutorial_rapidrun_data/bdr/db_embl_std.fasta
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