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Fastest way to use pysam view in order to get the reads in different regions
pysam_view samtools pysam bam optimisation
updated 3.6 years ago by ▴ 580 • written 3.6 years ago by ▴ 30
0
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1
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1.1k
views
Pysam and CRAM file
cram pysam samtools
updated 3.7 years ago by ★ 1.3k • written 3.8 years ago by ▴ 30
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0
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865
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Comment: Comment: Jellyfish databases overlap
3.9 years ago by MarVi ▴ 30
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2
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865
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Jellyfish databases overlap
Jellyfish
3.9 years ago by MarVi ▴ 30
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0
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754
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Comment: C: Sequencing Information from BAM file
3.9 years ago by MarVi ▴ 30
2
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2
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754
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Sequencing Information from BAM file
RNA-Seq BAM alignment Library
3.9 years ago by MarVi ▴ 30
0
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1
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868
views
Quicker way to know if a SNV is involved in a mismatch alignment
python cPickle Dictionary mismatch alignment
updated 4.3 years ago by 13k • written 4.3 years ago by ▴ 30
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2.0k
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Comment: C: Preventing alignment to new Splice Junctions with STAR
4.3 years ago by MarVi ▴ 30
2
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3
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2.0k
views
Preventing alignment to new Splice Junctions with STAR
alignment sequence STAR Splice-Junctions
updated 4.3 years ago by 4.1k • written 4.3 years ago by ▴ 30
3
votes
3
replies
2.8k
views
Why STAR Aligner limits alignments to soft-masked regions (lowercase letters in reference genome)?
alignment soft-masked regions genome GSNAP
updated 4.4 years ago by 105k • written 4.5 years ago by ▴ 30
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0
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2.8k
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Comment: C: Why STAR Aligner limits alignments to soft-masked regions (lowercase letters in
4.5 years ago by MarVi ▴ 30
0
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0
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1.5k
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Comment: C: Annotation Human genome transcripts, Transcript Support Level meaning
5.6 years ago by MarVi ▴ 30
1
vote
2
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1.5k
views
Annotation Human genome transcripts, Transcript Support Level meaning
gene Annotation Transcripts ensembl
updated 5.6 years ago by 24k • written 5.6 years ago by ▴ 30
1
vote
5
replies
2.1k
views
Defining transcript direction from sequencing
sequencing RNA-Seq
updated 6.0 years ago by 20 • written 6.8 years ago by ▴ 30
0
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0
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1.8k
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Comment: C: Cufflinks merge not report Transcripts?
6.2 years ago by MarVi ▴ 30
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2
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1.8k
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Cufflinks merge not report Transcripts?
Cufflinks RNA-Seq
6.2 years ago by MarVi ▴ 30
0
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0
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2.3k
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Comment: C: How to efficiently remove a list of reads according to their ID and mapped posit
6.6 years ago by MarVi ▴ 30
0
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1
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2.3k
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Comment: C: How to efficiently remove a list of reads according to their ID and mapped posit
6.6 years ago by MarVi ▴ 30
0
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7
replies
2.3k
views
How to efficiently remove a list of reads according to their ID and mapped position from BAM file?
samtools bam RNA-Seq alignment
updated 6.6 years ago by 165k • written 6.6 years ago by ▴ 30
0
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0
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2.3k
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Comment: C: How to efficiently remove a list of reads according to their ID and mapped posit
6.6 years ago by MarVi ▴ 30
4
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10
replies
4.1k
views
Problem with samtools view - retrieving reads mapped to a region
RNA-Seq sequence software error
updated 6.7 years ago by 47k • written 6.7 years ago by ▴ 30
0
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1
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4.1k
views
Comment: C: Problem with Samview - retrieving reads mapped to a region
6.7 years ago by MarVi ▴ 30
0
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2
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4.1k
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Comment: C: Problem with Samview - retrieving reads mapped to a region
6.7 years ago by MarVi ▴ 30
0
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1
reply
4.1k
views
Comment: C: Problem with Samview - retrieving reads mapped to a region
6.7 years ago by MarVi ▴ 30
0
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1
reply
1.2k
views
Transcript coverage considering exons
assembly RNA-Seq coverage
6.8 years ago by MarVi ▴ 30
0
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1
reply
8.4k
views
Comment: C: Export coverage Track from IGV
6.8 years ago by MarVi ▴ 30
0
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1
reply
8.4k
views
Comment: C: Export coverage Track from IGV
6.8 years ago by MarVi ▴ 30
0
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5
replies
8.4k
views
Export coverage Track from IGV
igv bedtools depth genomecov
6.8 years ago by MarVi ▴ 30
0
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0
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2.1k
views
Comment: C: Defining transcript direction from sequencing
6.8 years ago by MarVi ▴ 30
0
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1
reply
2.1k
views
Comment: C: Defining transcript direction from sequencing
6.8 years ago by MarVi ▴ 30
1
vote
0
replies
302k
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Comment: C: How To Filter Mapped Reads With Samtools
6.8 years ago by MarVi ▴ 30
0
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0
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8.8k
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Comment: C: Understanding MAPping Quality in SAM file / Star
6.9 years ago by MarVi ▴ 30
0
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0
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8.8k
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Comment: C: Understanding MAPping Quality in SAM file / Star
6.9 years ago by MarVi ▴ 30
0
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2
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8.8k
views
Comment: C: Understanding MAPping Quality in SAM file / Star
6.9 years ago by MarVi ▴ 30
6
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6
replies
8.8k
views
Understanding MAPping Quality in SAM file / Star
RNA-Seq alignment
updated 6.9 years ago by 102k • written 6.9 years ago by ▴ 30
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