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3
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12
replies
4.3k
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samtools mpileup keeps making an empty file
samtools pileup
updated 8 weeks ago by ▴ 120 • written 5.3 years ago by ▴ 130
0
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1
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1.4k
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Comment: Comment: Discussion: Uploading terabytes of data to NCBI SRA
8 months ago by James Reeve ▴ 130
3
votes
4
replies
1.4k
views
Forum: Discussion: Uploading terabytes of data to NCBI SRA
NCBI WGS archiving servers remote
updated 8 months ago by 141k • written 8 months ago by ▴ 130
0
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0
replies
551
views
Comment: Comment: Merged BAM has more reads than sum of parts
12 months ago by James Reeve ▴ 130
2
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3
replies
551
views
Merged BAM has more reads than sum of parts
fastq WGS samtools BWA
12 months ago by James Reeve ▴ 130
0
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1
reply
848
views
Comment: Comment: Can you predict the size of a BAM file based on the fasta?
2.9 years ago by James Reeve ▴ 130
0
votes
3
replies
848
views
Can you predict the size of a BAM file based on the fasta?
storage mapping bam
updated 2.9 years ago by 87k • written 2.9 years ago by ▴ 130
0
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0
replies
6.8k
views
Comment: C: Calculate Fis (inbreeding coefficient)
4.8 years ago by James Reeve ▴ 130
0
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0
replies
1.3k
views
PopGenome: What's the difference between two ways of checking population?
popgenome R
updated 4.8 years ago by 20 • written 4.9 years ago by ▴ 130
1
vote
1
reply
1.0k
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How do I multithread PoPoolation?
PoPoolation optimization
5.0 years ago by James Reeve ▴ 130
0
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1
reply
1.9k
views
Comment: C: What is the GMAP GFF3 score?
5.0 years ago by James Reeve ▴ 130
0
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3
replies
1.9k
views
What is the GMAP GFF3 score?
gmap gff3
5.0 years ago by James Reeve ▴ 130
0
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1
reply
32k
views
Comment: C: extract only geneID and gene symbol from GTF file
5.1 years ago by James Reeve ▴ 130
0
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0
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2.2k
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Comment: C: Question: Is samtools BAQ redundant after GATK's IndelRealinger
5.1 years ago by James Reeve ▴ 130
0
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1
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2.2k
views
Comment: C: Question: Is samtools BAQ redundant after GATK's IndelRealinger
5.1 years ago by James Reeve ▴ 130
4
votes
5
replies
2.2k
views
Question: Is samtools BAQ redundant after GATK's IndelRealinger
samtools indels
5.1 years ago by James Reeve ▴ 130
2
votes
2
replies
2.3k
views
VarScan: How is the DP score in a .vcf calculated?
VarScan VCF
updated 5.3 years ago by 13k • written 5.3 years ago by ▴ 130
0
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0
replies
4.3k
views
Comment: C: samtools mpileup keeps making an empty file
5.3 years ago by James Reeve ▴ 130
0
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1
reply
4.3k
views
Comment: C: samtools mpileup keeps making an empty file
5.3 years ago by James Reeve ▴ 130
0
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1
reply
4.3k
views
Comment: C: samtools mpileup keeps making an empty file
5.3 years ago by James Reeve ▴ 130
0
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0
replies
4.3k
views
Comment: C: samtools mpileup keeps making an empty file
5.3 years ago by James Reeve ▴ 130
0
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0
replies
4.3k
views
Comment: C: samtools mpileup keeps making an empty file
5.3 years ago by James Reeve ▴ 130
0
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0
replies
2.3k
views
Comment: C: Can I get AddOrReplaceReadGroups working for multiple files?
5.5 years ago by James Reeve ▴ 130
4
votes
3
replies
2.3k
views
Can I get AddOrReplaceReadGroups working for multiple files?
picard tools bash
updated 5.5 years ago by ★ 1.3k • written 5.5 years ago by ▴ 130
1
vote
1
reply
4.3k
views
How do I chose variant quality filters for a VCF file?
snp variant filter
5.6 years ago by James Reeve ▴ 130
1
vote
1
reply
4.6k
views
Comment: C: Error: Help understand Trimmomatic ZLIB input stream error
5.7 years ago by James Reeve ▴ 130
0
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0
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4.6k
views
Comment: C: Error: Help understand Trimmomatic ZLIB input stream error
5.7 years ago by James Reeve ▴ 130
0
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1
reply
4.6k
views
Comment: C: Error: Help understand Trimmomatic ZLIB input stream error
5.7 years ago by James Reeve ▴ 130
0
votes
0
replies
4.6k
views
Comment: C: Error: Help understand Trimmomatic ZLIB input stream error
5.7 years ago by James Reeve ▴ 130
0
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1
reply
4.6k
views
Comment: C: Error: Help understand Trimmomatic ZLIB input stream error
5.7 years ago by James Reeve ▴ 130
0
votes
1
reply
4.6k
views
Comment: C: Error: Help understand Trimmomatic ZLIB input stream error
5.7 years ago by James Reeve ▴ 130
2
votes
14
replies
4.6k
views
Error: Help understand Trimmomatic ZLIB input stream error
Trimmomatic
5.7 years ago by James Reeve ▴ 130
0
votes
0
replies
1.7k
views
How do you get multi-allelic SNP calls form a pooled sequence using GATK?
GATK SNPcalling multi-allelic_snp
5.7 years ago by James Reeve ▴ 130
0
votes
1
reply
3.0k
views
Comment: C: Locating Multiple Alternate Alleles in gatk.vcf file
5.8 years ago by James Reeve ▴ 130
0
votes
0
replies
2.8k
views
Comment: C: GATK SNPs calling multiple sample without any known SNPs database
5.8 years ago by James Reeve ▴ 130
0
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1
reply
1.6k
views
Comment: C: Does SortSam lead to a loss of data?
5.8 years ago by James Reeve ▴ 130
0
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1
reply
1.6k
views
Comment: C: Does SortSam lead to a loss of data?
5.8 years ago by James Reeve ▴ 130
3
votes
5
replies
1.6k
views
Does SortSam lead to a loss of data?
Picard
updated 5.8 years ago by 82k • written 5.8 years ago by ▴ 130
0
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1
reply
3.0k
views
Comment: C: Can someone explain what the -M option in BWA-MEM does?
5.8 years ago by James Reeve ▴ 130
3
votes
4
replies
3.0k
views
Can someone explain what the -M option in BWA-MEM does?
BWA alignment
updated 5.8 years ago by 104k • written 5.8 years ago by ▴ 130
0
votes
1
reply
3.7k
views
Comment: C: BQSR vs VQSR
5.9 years ago by James Reeve ▴ 130
4
votes
3
replies
3.7k
views
BQSR vs VQSR
SNP GATK
updated 5.9 years ago by 16k • written 5.9 years ago by ▴ 130
31
votes
4
replies
8.9k
views
Genotyping, genotype calling or SNP calling?
SNP alignment
updated 6.5 years ago by 87k • written 6.5 years ago by ▴ 130
0
votes
1
reply
4.2k
views
Comment: C: determining appropriate window size for identifying highly differentiated SNPs
6.5 years ago by James Reeve ▴ 130
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