Genomics_Project

This is the repository with all the required files to recreate the ChIp Seq - Motif analysis.

Large files as .bam .fastq and .sam can be downloaded directly from the original source or produced by the scripts.

Name		Name	Last commit message	Last commit date
Latest commit History 2 Commits
peak-motifs Anaerobic_A_+-100_bp_files		peak-motifs Anaerobic_A_+-100_bp_files
peak-motifs Anaerobic_A_files		peak-motifs Anaerobic_A_files
EC_K12.fna		EC_K12.fna
EC_K12.fna.fai		EC_K12.fna.fai
E_coli_K12.1.ebwt		E_coli_K12.1.ebwt
E_coli_K12.2.ebwt		E_coli_K12.2.ebwt
E_coli_K12.3.ebwt		E_coli_K12.3.ebwt
E_coli_K12.4.ebwt		E_coli_K12.4.ebwt
E_coli_K12.rev.1.ebwt		E_coli_K12.rev.1.ebwt
E_coli_K12.rev.2.ebwt		E_coli_K12.rev.2.ebwt
Genomics_Project.sh		Genomics_Project.sh
MACS.out		MACS.out
Pipeline.odt		Pipeline.odt
README.md		README.md
SRR576933.out		SRR576933.out
SRR576933_experiment.tagAlign.gz		SRR576933_experiment.tagAlign.gz
SRR576933_experiment.tagAlign.pdf		SRR576933_experiment.tagAlign.pdf
SRR576933_experiment_phantompeaks		SRR576933_experiment_phantompeaks
SRR576933_fastqc.html		SRR576933_fastqc.html
SRR576933_fastqc.zip		SRR576933_fastqc.zip
SRR576938.out		SRR576938.out
SRR576938_experiment.tagAlign.gz		SRR576938_experiment.tagAlign.gz
SRR576938_experiment.tagAlign.pdf		SRR576938_experiment.tagAlign.pdf
SRR576938_experiment_phantompeaks		SRR576938_experiment_phantompeaks
SRR576938_fastqc.html		SRR576938_fastqc.html
SRR576938_fastqc.zip		SRR576938_fastqc.zip
macs2_NarrowPeaks.fa		macs2_NarrowPeaks.fa
macs2_control_lambda.bdg		macs2_control_lambda.bdg
macs2_peaks.fa		macs2_peaks.fa
macs2_peaks.narrowPeak		macs2_peaks.narrowPeak
macs2_peaks.xls		macs2_peaks.xls
macs2_summits+-100.bed		macs2_summits+-100.bed
macs2_summits+-100.fa		macs2_summits+-100.fa
macs2_summits.bed		macs2_summits.bed
macs2_treat_pileup.bdg		macs2_treat_pileup.bdg
peak-motifs Anaerobic_A.html		peak-motifs Anaerobic_A.html
peak-motifs Anaerobic_A_+-100_bp.html		peak-motifs Anaerobic_A_+-100_bp.html
run_spp.R		run_spp.R

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