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0
votes
2
replies
855
views
Pisces doesn't like high-quality reads when there is a soft-clip affecting the full read.
Pisces
updated 3 days ago by 89k • written 2.2 years ago by ▴ 110
0
votes
0
replies
497
views
Handling FILTER Fields in VCF Metadata and Body
VCF
14 months ago by ManuelDB ▴ 110
0
votes
0
replies
986
views
Comment: Comment: Hard filtering to reduce false positive variants due to poly track sequences
14 months ago by ManuelDB ▴ 110
2
votes
2
replies
986
views
Hard filtering to reduce false positive variants due to poly track sequences
GATK
updated 14 months ago by 154k • written 14 months ago by ▴ 110
0
votes
1
reply
656
views
Filtering Non-Homozygous and Non-Heterozygous Variants in DNA Analysis Pipeline
NGS
updated 15 months ago by 45k • written 15 months ago by ▴ 110
1
vote
0
replies
892
views
Comment: Comment: Optimising False Positive Detection in NGS Pipelines Using Mapping and Base Qual
15 months ago by ManuelDB ▴ 110
2
votes
2
replies
892
views
Optimising False Positive Detection in NGS Pipelines Using Mapping and Base Quality Scores
BaseQualityRankSumTest
15 months ago by ManuelDB ▴ 110
0
votes
0
replies
973
views
Comment: Comment: Replace SB flag by PASS in my VCF file
15 months ago by ManuelDB ▴ 110
2
votes
4
replies
973
views
Replace SB flag by PASS in my VCF file
VCF
15 months ago by ManuelDB ▴ 110
0
votes
0
replies
973
views
Comment: Comment: Replace SB flag by PASS in my VCF file
15 months ago by ManuelDB ▴ 110
2
votes
1
reply
654
views
GATK4 VariantAnnotator deletes variants
GATK4
updated 15 months ago by 166k • written 15 months ago by ▴ 110
0
votes
0
replies
403
views
Understanding the transcript version comparison in the ncbi webside
NCBI
16 months ago by ManuelDB ▴ 110
0
votes
1
reply
1.4k
views
Comment: Comment: New versions of the same transcripts ID may have different exons coordinates??
17 months ago by ManuelDB ▴ 110
3
votes
4
replies
1.4k
views
New versions of the same transcripts ID may have different exons coordinates??
RefSeq
updated 17 months ago by 22k • written 17 months ago by ▴ 110
1
vote
1
reply
573
views
How can I get the total list of RefSeq transcripts?
RefSeq
updated 17 months ago by 154k • written 17 months ago by ▴ 110
0
votes
1
reply
1.5k
views
Answer: Answer: Could not parse a VCF file when using bcftools annotate
17 months ago by ManuelDB ▴ 110
1
vote
3
replies
1.5k
views
Could not parse a VCF file when using bcftools annotate
bcftools
updated 17 months ago by 45k • written 17 months ago by ▴ 110
1
vote
1
reply
612
views
Alternative Database for Somatic Indel Realignment (COSMIC Alternative)
COSMIC
updated 17 months ago by ▴ 290 • written 17 months ago by ▴ 110
0
votes
1
reply
615
views
PEAR seems to have sense to me
PEAR
updated 20 months ago by 154k • written 20 months ago by ▴ 110
0
votes
0
replies
420
views
MultiGemini is not doing indel realignment, right?? Gemini does't work with single read?
MultiGemini
20 months ago by ManuelDB ▴ 110
0
votes
0
replies
1.5k
views
Comment: Comment: 1 Bioinformatician position in San Sebastian (Spain)
20 months ago by ManuelDB ▴ 110
0
votes
0
replies
614
views
Comment: Comment: FastaAlternateReferenceMaker merges overlapping regions
21 months ago by ManuelDB ▴ 110
0
votes
1
reply
614
views
FastaAlternateReferenceMaker merges overlapping regions
FastaAlternateReferenceMaker
updated 21 months ago by 45k • written 21 months ago by ▴ 110
0
votes
0
replies
1.4k
views
Comment: Comment: CIGAR and query sequence lengths differ
23 months ago by ManuelDB ▴ 110
0
votes
0
replies
1.4k
views
Comment: Comment: CIGAR and query sequence lengths differ
23 months ago by ManuelDB ▴ 110
1
vote
3
replies
1.4k
views
CIGAR and query sequence lengths differ
pysam samtools
23 months ago by ManuelDB ▴ 110
1
vote
1
reply
1.0k
views
How to properly mock a (Pysam) read
pysam
updated 23 months ago by 103k • written 23 months ago by ▴ 110
2
votes
1
reply
927
views
Issue softclipping reads when they belong and don't belong to a common amplicon
Samtools softclip
updated 23 months ago by ▴ 390 • written 23 months ago by ▴ 110
1
vote
1
reply
740
views
Two identical reads in my bam files but with a different in CIGAR are mapped in a different location in IGV
pysam
23 months ago by ManuelDB ▴ 110
1
vote
0
replies
740
views
Answer: Answer: Two identical reads in my bam files but with a different in CIGAR are mapped in
23 months ago by ManuelDB ▴ 110
0
votes
0
replies
2.2k
views
Comment: Comment: Different number of reads when converting data from FASTQ to BAM and CRAM to FAS
2.0 years ago by ManuelDB ▴ 110
0
votes
0
replies
2.2k
views
Comment: Comment: Different number of reads when converting data from FASTQ to BAM and CRAM to FAS
2.0 years ago by ManuelDB ▴ 110
0
votes
1
reply
2.2k
views
Comment: Comment: Different number of reads when converting data from FASTQ to BAM and CRAM to FAS
2.0 years ago by ManuelDB ▴ 110
0
votes
2
replies
2.2k
views
Comment: Comment: Different number of reads when converting data from FASTQ to BAM and CRAM to FAS
2.0 years ago by ManuelDB ▴ 110
0
votes
1
reply
2.2k
views
Comment: Comment: Different number of reads when converting data from FASTQ to BAM and CRAM to FAS
2.0 years ago by ManuelDB ▴ 110
5
votes
10
replies
2.2k
views
Different number of reads when converting data from FASTQ to BAM and CRAM to FASTQ
picard
2.0 years ago by ManuelDB ▴ 110
0
votes
0
replies
1.7k
views
Comment: Comment: FASTQ to BAM to CRAM to FASTQ
2.0 years ago by ManuelDB ▴ 110
0
votes
0
replies
48k
views
Comment: Comment: installing samtools with conda - overcoming two common errors
2.0 years ago by ManuelDB ▴ 110
1
vote
0
replies
25k
views
Comment: Comment: How To Efficiently Sort A Fastq File By Entry Id?
2.1 years ago by ManuelDB ▴ 110
5
votes
4
replies
1.7k
views
FASTQ to BAM to CRAM to FASTQ
Samtools
2.0 years ago by ManuelDB ▴ 110
0
votes
4
replies
2.5k
views
Cannot read non-existent file: when executing MarkDuplicates in a script
GATK4
updated 2.1 years ago by • 0 • written 3.6 years ago by ▴ 110
0
votes
0
replies
550
views
ERROR::INVALID_ALIGNMENT_START Alignment start should be 0 because reference name = *.
Pysam ValidateSamFile
2.1 years ago by ManuelDB ▴ 110
0
votes
0
replies
1.2k
views
Comment: Comment: How to deal with reads which CIGAR is [0-9]+S
2.1 years ago by ManuelDB ▴ 110
1
vote
3
replies
1.2k
views
How to deal with reads which CIGAR is [0-9]+S
CIGAR ampliconclip
updated 2.1 years ago by ★ 1.4k • written 2.1 years ago by ▴ 110
0
votes
0
replies
4.5k
views
Comment: Comment: Liftover GRCh37 to hg38 1kg/GATK.
2.2 years ago by ManuelDB ▴ 110
6
votes
2
replies
4.5k
views
Liftover GRCh37 to hg38 1kg/GATK.
Liftover
2.2 years ago by ManuelDB ▴ 110
0
votes
1
reply
1.4k
views
Comment: Comment: samtools ampliconclip option --strand is not working?
2.2 years ago by ManuelDB ▴ 110
5
votes
2
replies
1.4k
views
samtools ampliconclip option --strand is not working?
samtools ampliconclip
updated 8 months ago by ▴ 50 • written 2.2 years ago by ▴ 110
1
vote
0
replies
1.9k
views
Comment: Comment: How is the format of the bed file for samtools ampliconclip
2.2 years ago by ManuelDB ▴ 110
0
votes
1
reply
1.9k
views
Comment: Comment: How is the format of the bed file for samtools ampliconclip
2.2 years ago by ManuelDB ▴ 110
149 results • Page 1 of 3
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