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bioinfo
ngs_tools
Commits
e49c69ea
Commit
e49c69ea
authored
May 18, 2018
by
Lena Hersemann
Browse files
Merge remote-tracking branch 'origin/master'
parents
9ee74d5b
4ad913ba
Changes
1
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common/igenomes/mouse_ens92.sh
View file @
e49c69ea
...
...
@@ -46,10 +46,10 @@ samtools faidx genome.fa &
mcdir
${
IGENOME_BASE
}
/Annotation
mcdir
${
IGENOME_BASE
}
/Annotation/Genes
wget ftp://ftp.ensembl.org/pub/release-88/gtf/homo_sapiens/Homo_sapiens.GRCh38.88.gtf.gz
#
wget ftp://ftp.ensembl.org/pub/release-92/gtf/mus_musculus/Mus_musculus.GRCm38.92.gtf.gz
#
wget ftp://ftp.ensembl.org/pub/release-88/gtf/homo_sapiens/Homo_sapiens.GRCh38.88.gtf.gz
wget ftp://ftp.ensembl.org/pub/release-92/gtf/mus_musculus/Mus_musculus.GRCm38.92.gtf.gz
gunzip
-c
Homo_sapien
s.GRC
h
38.
88
.gtf.gz
>
genes.gtf
gunzip
-c
Mus_musculu
s.GRC
m
38.
92
.gtf.gz
>
genes.gtf
#head genes.gtf
ll
${
IGENOME_BASE
}
/Sequence/WholeGenomeFasta/genome.fa
...
...
@@ -75,4 +75,6 @@ jl submit "kallisto index -i ${refFasta}.kallisto.idx ${refFasta}"
jl
wait
--email
wait
# for star index creation
mailme
"igenome build done in
$(
pwd
)
"
\ No newline at end of file
mailme
"igenome build done in
$(
pwd
)
"
chmod
-R
u-w
${
IGENOME_BASE
}
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