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0
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0
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462
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Handling FILTER Fields in VCF Metadata and Body
VCF
13 months ago by ManuelDB ▴ 110
0
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0
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887
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Comment: Comment: Hard filtering to reduce false positive variants due to poly track sequences
13 months ago by ManuelDB ▴ 110
2
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2
replies
887
views
Hard filtering to reduce false positive variants due to poly track sequences
GATK
updated 13 months ago by 154k • written 13 months ago by ▴ 110
0
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1
reply
609
views
Filtering Non-Homozygous and Non-Heterozygous Variants in DNA Analysis Pipeline
NGS
updated 14 months ago by 45k • written 14 months ago by ▴ 110
1
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0
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786
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Comment: Comment: Optimising False Positive Detection in NGS Pipelines Using Mapping and Base Qual
14 months ago by ManuelDB ▴ 110
2
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2
replies
786
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Optimising False Positive Detection in NGS Pipelines Using Mapping and Base Quality Scores
BaseQualityRankSumTest
14 months ago by ManuelDB ▴ 110
0
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0
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894
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Comment: Comment: Replace SB flag by PASS in my VCF file
14 months ago by ManuelDB ▴ 110
2
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4
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894
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Replace SB flag by PASS in my VCF file
VCF
14 months ago by ManuelDB ▴ 110
0
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0
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894
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Comment: Comment: Replace SB flag by PASS in my VCF file
14 months ago by ManuelDB ▴ 110
2
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1
reply
601
views
GATK4 VariantAnnotator deletes variants
GATK4
updated 14 months ago by 166k • written 14 months ago by ▴ 110
0
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0
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368
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Understanding the transcript version comparison in the ncbi webside
NCBI
15 months ago by ManuelDB ▴ 110
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1
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1.3k
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Comment: Comment: New versions of the same transcripts ID may have different exons coordinates??
15 months ago by ManuelDB ▴ 110
3
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4
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1.3k
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New versions of the same transcripts ID may have different exons coordinates??
RefSeq
updated 15 months ago by 22k • written 15 months ago by ▴ 110
1
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1
reply
504
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How can I get the total list of RefSeq transcripts?
RefSeq
updated 15 months ago by 154k • written 15 months ago by ▴ 110
0
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1
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1.4k
views
Answer: Answer: Could not parse a VCF file when using bcftools annotate
15 months ago by ManuelDB ▴ 110
1
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3
replies
1.4k
views
Could not parse a VCF file when using bcftools annotate
bcftools
updated 15 months ago by 45k • written 15 months ago by ▴ 110
1
vote
1
reply
553
views
Alternative Database for Somatic Indel Realignment (COSMIC Alternative)
COSMIC
updated 16 months ago by ▴ 290 • written 16 months ago by ▴ 110
0
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1
reply
559
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PEAR seems to have sense to me
PEAR
updated 18 months ago by 154k • written 18 months ago by ▴ 110
0
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0
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379
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MultiGemini is not doing indel realignment, right?? Gemini does't work with single read?
MultiGemini
19 months ago by ManuelDB ▴ 110
0
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0
replies
1.4k
views
Comment: Comment: 1 Bioinformatician position in San Sebastian (Spain)
19 months ago by ManuelDB ▴ 110
0
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0
replies
546
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Comment: Comment: FastaAlternateReferenceMaker merges overlapping regions
19 months ago by ManuelDB ▴ 110
0
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1
reply
546
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FastaAlternateReferenceMaker merges overlapping regions
FastaAlternateReferenceMaker
updated 19 months ago by 45k • written 19 months ago by ▴ 110
0
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0
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1.2k
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Comment: Comment: CIGAR and query sequence lengths differ
21 months ago by ManuelDB ▴ 110
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0
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1.2k
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Comment: Comment: CIGAR and query sequence lengths differ
21 months ago by ManuelDB ▴ 110
1
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3
replies
1.2k
views
CIGAR and query sequence lengths differ
pysam samtools
21 months ago by ManuelDB ▴ 110
1
vote
1
reply
937
views
How to properly mock a (Pysam) read
pysam
updated 21 months ago by 103k • written 21 months ago by ▴ 110
2
votes
1
reply
839
views
Issue softclipping reads when they belong and don't belong to a common amplicon
Samtools softclip
updated 22 months ago by ▴ 390 • written 22 months ago by ▴ 110
1
vote
1
reply
674
views
Two identical reads in my bam files but with a different in CIGAR are mapped in a different location in IGV
pysam
22 months ago by ManuelDB ▴ 110
1
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0
replies
674
views
Answer: Answer: Two identical reads in my bam files but with a different in CIGAR are mapped in
22 months ago by ManuelDB ▴ 110
0
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0
replies
2.0k
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Comment: Comment: Different number of reads when converting data from FASTQ to BAM and CRAM to FAS
23 months ago by ManuelDB ▴ 110
0
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0
replies
2.0k
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Comment: Comment: Different number of reads when converting data from FASTQ to BAM and CRAM to FAS
23 months ago by ManuelDB ▴ 110
0
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1
reply
2.0k
views
Comment: Comment: Different number of reads when converting data from FASTQ to BAM and CRAM to FAS
23 months ago by ManuelDB ▴ 110
0
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2
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2.0k
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Comment: Comment: Different number of reads when converting data from FASTQ to BAM and CRAM to FAS
23 months ago by ManuelDB ▴ 110
0
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1
reply
2.0k
views
Comment: Comment: Different number of reads when converting data from FASTQ to BAM and CRAM to FAS
23 months ago by ManuelDB ▴ 110
5
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10
replies
2.0k
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Different number of reads when converting data from FASTQ to BAM and CRAM to FASTQ
picard
23 months ago by ManuelDB ▴ 110
0
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0
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1.6k
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Comment: Comment: FASTQ to BAM to CRAM to FASTQ
23 months ago by ManuelDB ▴ 110
0
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0
replies
47k
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Comment: Comment: installing samtools with conda - overcoming two common errors
23 months ago by ManuelDB ▴ 110
1
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0
replies
24k
views
Comment: Comment: How To Efficiently Sort A Fastq File By Entry Id?
23 months ago by ManuelDB ▴ 110
5
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4
replies
1.6k
views
FASTQ to BAM to CRAM to FASTQ
Samtools
23 months ago by ManuelDB ▴ 110
0
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4
replies
2.4k
views
Cannot read non-existent file: when executing MarkDuplicates in a script
GATK4
updated 23 months ago by • 0 • written 3.5 years ago by ▴ 110
0
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0
replies
488
views
ERROR::INVALID_ALIGNMENT_START Alignment start should be 0 because reference name = *.
Pysam ValidateSamFile
23 months ago by ManuelDB ▴ 110
0
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0
replies
1.1k
views
Comment: Comment: How to deal with reads which CIGAR is [0-9]+S
23 months ago by ManuelDB ▴ 110
1
vote
3
replies
1.1k
views
How to deal with reads which CIGAR is [0-9]+S
CIGAR ampliconclip
updated 23 months ago by ★ 1.4k • written 23 months ago by ▴ 110
0
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0
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3.9k
views
Comment: Comment: Liftover GRCh37 to hg38 1kg/GATK.
2.0 years ago by ManuelDB ▴ 110
6
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2
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3.9k
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Liftover GRCh37 to hg38 1kg/GATK.
Liftover
2.0 years ago by ManuelDB ▴ 110
0
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1
reply
1.3k
views
Comment: Comment: samtools ampliconclip option --strand is not working?
2.1 years ago by ManuelDB ▴ 110
5
votes
2
replies
1.3k
views
samtools ampliconclip option --strand is not working?
samtools ampliconclip
updated 7 months ago by ▴ 50 • written 2.1 years ago by ▴ 110
1
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0
replies
1.8k
views
Comment: Comment: How is the format of the bed file for samtools ampliconclip
2.1 years ago by ManuelDB ▴ 110
0
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1
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1.8k
views
Comment: Comment: How is the format of the bed file for samtools ampliconclip
2.1 years ago by ManuelDB ▴ 110
4
votes
7
replies
1.8k
views
How is the format of the bed file for samtools ampliconclip
samtools ampliconclip
updated 2.1 years ago by ▴ 390 • written 2.1 years ago by ▴ 110
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