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ant1-rnaseq

rna-seq analysis

in heart McManus et al. (submitted)

in muscle Morrow et al.

##Sequences## ###Heart Biosamples###

Submission ID SUB2425516
BioProject ID PRJNA376146
BioSample accessions SAMN06350839, SAMN06350840, SAMN06350841, SAMN06350842, SAMN06350843, SAMN06350844, SAMN06350845, SAMN06350846

###Muscle Biosamples###

Submission ID SUB2432979
BioProject ID PRJNA376587
BioSample accessions SAMN06435823, SAMN06435824, SAMN06435825, SAMN06435826, SAMN06435827, SAMN06435828, SAMN06435829, SAMN06435830

References from iGenomes: UCSC or ENSL

Transcript fasta: ftp://ftp.ensembl.org/pub/release-74/fasta/mus_musculus/cdna/Mus_musculus.GRCm38.74.cdna.all.fa.gz

###Fetching requirements with conda###

#install miniconda
wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda.sh
bash miniconda.sh -b -p $HOME/miniconda
export PATH="$HOME/miniconda/bin:$PATH"

conda create --name ant1env --file requirements.txt
source activate ant1env

####To run

source activate ant1env
snakemake -j 16

Snakemake

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