Showing: samreset
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Filtering SAM file based on column numbers
filter alignment sam written 8 days ago by elena.syp0 • updated 8 days ago by Pierre Lindenbaum114k
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1
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212
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sam file not showing multi mapped reads
bowtie2 sam written 9 weeks ago by mossigstamboulian30 • updated 10 days ago by Biostar ♦♦ 20
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128
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Get genes and coverage/depth per gene from sam/bam
ngs bam sam coverage per gene depth per gene written 14 days ago by prishly0 • updated 14 days ago by Charles Warden5.6k
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555
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112
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108
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How to ignore truncation error with PySam?
python sam alignment mapping pysam written 29 days ago by O.rka60 • updated 25 days ago by Biostar ♦♦ 20
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1
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139
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A constant problem with SAM file header
software error bowtie2 sam written 29 days ago by popescuiofelia0 • updated 29 days ago by h.mon21k
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102
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Finding the number of aligned nucleotides per read in a sam file
cigar stings sam written 29 days ago by ioannis30 • updated 29 days ago by Pierre Lindenbaum114k
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1
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469
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1
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How to extract sequence message from SAM?
bed sam sequencing written 18 months ago by Jeason Rad30 • updated 5 weeks ago by Biostar ♦♦ 20
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1
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150
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8 follow
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Merge multiple Sam files to one big Sam file. How?
overlapzscore samtools sam heatmap written 6 weeks ago by jaqx00840 • updated 6 weeks ago by gocougs0
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142
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I can't convert the sam file to fastq file.
fastq sam written 2.7 years ago by porori30000 • updated 7 weeks ago by RamRS19k
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BLAST geneate Output SAM file , Missing aligned sequences.
blast bam sam output rna-seq written 2.7 years ago by clear.choi30 • updated 7 weeks ago by RamRS19k
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705
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softclip vs mismatch at either end
alignment sam written 2.2 years ago by -_-710 • updated 8 weeks ago by Biostar ♦♦ 20
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2
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2
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Problem iterating through BAM file using pysam
python sam bam forloop pysam written 2.7 years ago by c9r1y0 • updated 8 weeks ago by RamRS19k
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Extracting Reads by position
alignment sam bam written 2.7 years ago by michael.madans9410 • updated 8 weeks ago by RamRS19k
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236
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153
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9
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Pysam Parses Certain Read Pairs Out Of Order?
python next-gen samtools sam sequencing written 8.3 years ago by User 9996790 • updated 9 weeks ago by RamRS19k
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2
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5 follow
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Going From Cigar String In Sam To Genomic Coordinates?
cigar alignment sam parsing written 8.3 years ago by User 9996790 • updated 9 weeks ago by RamRS19k
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Bwa Sam Output Doubts
alignment format sam output bwa written 8.4 years ago by Seq_Ga30 • updated 9 weeks ago by RamRS19k
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4
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Conversion of sam to bam using samtools
ngs bam samtools sam rna-seq written 3 months ago by abhilashreddy4950 • updated 10 weeks ago by Biostar ♦♦ 20
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3
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How to extract certain tag value by key from sam/bam file?
awk linux samtools sam bash written 10 weeks ago by yech199020 • updated 10 weeks ago by Pierre Lindenbaum114k
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174
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1
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118
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Solved: BWA ALN cannot not find a very obvious match
alignment sam bwa written 10 weeks ago by max10 • updated 10 weeks ago by genomax58k
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179
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0
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1
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209
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178
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Efficient processing of a read and its mate from bam file
htsjdk java bam samtools sam written 3 months ago by mhasa00630 • updated 3 months ago by finswimmer6.8k
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2
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Iterating through paired-end reads in samtools / pysam
python bam sam written 7 months ago by olavur70 • updated 3 months ago by gizone120
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