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Cedric Midoux
deepomics16S
Commits
9dfbb487
Commit
9dfbb487
authored
Apr 04, 2019
by
Cedric Midoux
Browse files
DADA2 filterAndTrim
parent
3299174d
Changes
2
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filterAndTrim.R
0 → 100644
View file @
9dfbb487
library
(
dada2
)
filterAndTrim
(
snakemake
@
input
[[
1
]],
snakemake
@
output
[[
1
]],
maxN
=
0
,
rm.phix
=
TRUE
,
compress
=
TRUE
,
verbose
=
TRUE
)
preprocess.smk
View file @
9dfbb487
...
...
@@ -15,3 +15,11 @@ rule cutadapt:
"--match-read-wildcards "
"-o {output} "
"{input} "
rule filter:
input:
"work/cutadapt/{sample}.fastq.gz"
output:
"work/filter/{sample}.fastq.gz"
script:
"filterAndTrim.R"
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