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scriptForRunningKallisto.sh
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scriptForRunningKallisto.sh
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cd fastqFiles
kallisto index -i musMusculusIndex ../Mus_musculus.GRCm38.cdna.all.fa.gz
cd fastqFiles1
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles2
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles3
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles4
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles5
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles6
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles7
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles8
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles9
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles10
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles11
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles12
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles13
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles14
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles15
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles16
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles17
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles18
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles19
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles20
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles21
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles22
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles23
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles24
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles25
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles26
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles27
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles28
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..
cd fastqFiles29
kallisto quant -i ../musMusculusIndex --threads=8 -b 100 --single -l 180 -s 20 -o . ./SRR*.fastq.gz
cd ..