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How to determine mutation type/subtype via pysam/samtools
vcf type samtools pysam snp written 10 weeks ago by mike.rightmire0 • updated 10 weeks ago by Pierre Lindenbaum133k
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How to get inserted bases using pysam pileup
next-gen alignment pysam bam written 8 months ago by va9010 • updated 3 months ago by Lhl730
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pysam doesn't calculate correct nucleotide quantities from .bam file
count pysam python written 3 months ago by vit.filippo50 • updated 3 months ago by dariober11k
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Incorrect sequence retrieved by coordinates
fasta python biopython pysam written 6 months ago by Igor Filippov0 • updated 6 months ago by Istvan Albert ♦♦ 86k
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Pysam pileup method gives more columns than expected
python pysam written 7 months ago by Didrik.Olofsson0 • updated 7 months ago by khorms210
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Type error in argument header
alignment pysam written 8 months ago by sam0
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Error during htseq-count
htseq-count star pysam written 3.4 years ago by baffiak190210 • updated 10 months ago by Biostar ♦♦ 20
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Pysam pileup dropping reads
pysam pileup written 11 months ago by yryan0
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understanding pysam.AlignmentFile output
bam pysam sam written 12 months ago by bitpir190 • updated 12 months ago by onestop_data250
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Difference between Pysam Pileup and Fetch
reads bam pysam pileup written 16 months ago by aalith10 • updated 13 months ago by castaway19900
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Trim each read from bam file
trimbam bam pysam written 13 months ago by SSK10
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Import Module error Pysam
pysam snp written 16 months ago by prahalad.atreyaa0 • updated 14 months ago by Biostar ♦♦ 20
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suppress pysam index warnings.
python bam pysam written 14 months ago by b10hazard30 • updated 14 months ago by John Marshall2.2k
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Mapping quality score of clipped reads
python bam pysam written 14 months ago by radwa.raed10 • updated 14 months ago by swbarnes29.3k
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Pipe pysam.view() output to pysam.sort()
python sam alignment pysam sort written 15 months ago by Macspider3.3k • updated 15 months ago by gb1.9k
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Parsing tabix with pysam
tabix pysam written 18 months ago by Alex Reynolds31k • updated 18 months ago by John Marshall2.2k
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Error Filtering BAM file based on mapping qualities in python's pysam
next-gen alignment pysam written 4.1 years ago by ammarsabir1560 • updated 19 months ago by Biostar ♦♦ 20
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