MCAC

Myocardiopathies and Arhythmogenic Channelopathies

"Mistery" files were created by misterious software installed on the MiSeq control computer.

Will align reads against hg19, with BWA.

Got bundle of dbsnp etc. from GATK.

Name		Name	Last commit message	Last commit date
Latest commit History 229 Commits
align_bwa		align_bwa
alignment_map_prepare		alignment_map_prepare
allele_frequencies		allele_frequencies
call_variants_freebayes		call_variants_freebayes
cardio_genes		cardio_genes
indel_realign_alignment_maps		indel_realign_alignment_maps
intersections		intersections
prediction_intersect_mongodb		prediction_intersect_mongodb
quality_control		quality_control
shared_variation		shared_variation
targets		targets
vep		vep
vep_etl		vep_etl
.gitignore		.gitignore
LICENSE		LICENSE
README.md		README.md
a_query.js		a_query.js
evidence.py		evidence.py
existing_variation_ids.txt		existing_variation_ids.txt
existing_variation_make_uniq.py		existing_variation_make_uniq.py
filter_vcf_by_qual.py		filter_vcf_by_qual.py
filter_veps.py		filter_veps.py
genes_from_vep.py		genes_from_vep.py
get_clinical_significances.py		get_clinical_significances.py
heatmap_genes_samples.py		heatmap_genes_samples.py
heatmap_rsids_samples.py		heatmap_rsids_samples.py
intersect_vcf.py		intersect_vcf.py
isec_24_34_42.sh		isec_24_34_42.sh
isec_vcfs.sh		isec_vcfs.sh
merge_bams.sh		merge_bams.sh
merge_vcfs.sh		merge_vcfs.sh
pipeline_tit.dia		pipeline_tit.dia
pipeline_trusty.dia		pipeline_trusty.dia
pipeline_trusty.png		pipeline_trusty.png
remove_repeats_from_vcfs.sh		remove_repeats_from_vcfs.sh
requirements.txt		requirements.txt
sort_vcfs.sh		sort_vcfs.sh
vcf2fasta.sh		vcf2fasta.sh
vcf2provean.py		vcf2provean.py
vcf2provean.sh		vcf2provean.sh
vcf_sort.py		vcf_sort.py
vcf_sort_basespace.sh		vcf_sort_basespace.sh