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Shane McCarthy
Shane McCarthy
Reputation:
370
Joined:
13.3 years ago
Last seen:
8.6 years ago
Location:
Cambridge, Cambridgeshire
Google Scholar:
teRO1oAAAAAJ

about me

Latest posts by user
2 votes
0 replies
0 views
Answer: A: Filtering VCF file by INFO flag
written by Shane McCarthy Shane McCarthy
2 votes
0 replies
2.9K views
Job: Genomics Data Scientist - Sanger Institute, Cambridge, UK
assembly genome
updated by Ram Ram • written by Shane McCarthy Shane McCarthy
0 votes
1 reply
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Answer: A: getting GQ values with VCF using SAMTOOLS Mpileup
written by Shane McCarthy Shane McCarthy
5 votes
0 replies
1 view
Comment: C: samtools mpileup VCF output
written by Shane McCarthy Shane McCarthy
1 vote
1 reply
1 view
Answer: A: BCF file is too big? (from 3,73 GB sorted.bam file to over 200 GB BCF)
written by Shane McCarthy Shane McCarthy
1 vote
0 replies
0 views
Answer: A: 1000 genomes project mitochondrial DNA sequences
written by Shane McCarthy Shane McCarthy
5 votes
1 reply
0 views
Answer: A: samtools mpileup - how to extract the alternative allele counts for *each* alter
written by Shane McCarthy Shane McCarthy
0 votes
0 replies
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Comment: C: VCF to genotype file of specific format
written by Shane McCarthy Shane McCarthy
3 votes
1 reply
0 views
Answer: A: VCF to genotype file of specific format
written by Shane McCarthy Shane McCarthy
2 votes
1 reply
0 views
Answer: A: BCFTools view equivelent of GATK -T SelectVariants -sn sample_x --excludeNonVari
written by Shane McCarthy Shane McCarthy
3 votes
1 reply
0 views
Answer: Answer: bsctools merge on duplicate samples
updated by Ram Ram • written by Shane McCarthy Shane McCarthy
10 votes
2 replies
0 views
Answer: A: A tool to annotate one VCF file with INFO records of another VCF taking SNP into
written by Shane McCarthy Shane McCarthy
1 vote
0 replies
0 views
Comment: Comment: How to process 1000GP data
updated by Ram Ram • written by Shane McCarthy Shane McCarthy
2 votes
0 replies
59 views
Comment: C: Samtofastq: Net.Sf.Picard.Picardexception: "Found N Unpaired Mates "
written by Shane McCarthy Shane McCarthy
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