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279
votes
11
answers
165k
views
126 follow
11
answers
Tools To Calculate Average Coverage For A Bam File?
bam coverage sequencing written 9.9 years ago by Biomed4.7k • updated 2.3 years ago by WouterDeCoster44k
132
votes
7
answers
141k
views
32 follow
7
answers
What Is The Sequencing 'Depth' ?
next-gen sequencing written 10.7 years ago by Pierre Lindenbaum131k • updated 12 months ago by Renesh1.9k
110
votes
5
answers
125k
views
23 follow
5
answers
How Can I Convert Bam To Sam?
sequencing next-gen sam conversion bam written 10.4 years ago by Biomed4.7k • updated 7.1 years ago by Chris Miller21k
232
votes
15
answers
65k
views
78 follow
15
answers
What Is The Best Pipeline For Human Whole Exome Sequencing?
exome illumina next-gen human sequencing written 10.5 years ago by Biomed4.7k • updated 5.8 years ago by Barry40
90
votes
7
answers
60k
views
58 follow
7
answers
52
votes
5
answers
59k
views
23 follow
5
answers
from .BAM to .BAI using samtools
next-gen samtools sequencing written 6.2 years ago by Kizuna820 • updated 10 months ago by Waldeyr Mendes Cordeiro da Silva10
66
votes
6
answers
58k
views
20 follow
6
answers
98
votes
5
answers
52k
views
28 follow
5
answers
Is My Bam File Sorted ?
sequencing next-gen bam sort written 9.8 years ago by Pierre Lindenbaum131k • updated 3.7 years ago by martin.triska130
161
votes
15
answers
46k
views
47 follow
15
answers
How To Efficiently Parse A Huge Fastq File?
sequencing fastq next-gen parsing written 9.4 years ago by Panos1.7k • updated 6.2 years ago by bstrs0
57
votes
6
answers
43k
views
32 follow
6
answers
Estimate Insert Size In Paired-End/Mate-Pair
next-gen paired alignment sequencing written 8.9 years ago by Ric160 • updated 8.9 years ago by Ketil4.0k
29
votes
1
answer
41k
views
9 follow
1
answer
What Is The Difference Between Sequencing Depth And Coverage
read coverage sequencing written 9.7 years ago by User 6659970 • updated 9.7 years ago by Michael Dondrup48k
109
votes
8
answers
41k
views
54 follow
8
answers
Workflow Or Tutorial For Snp Calling?
alignment next-gen samtools snp sequencing written 9.6 years ago by Matthieu460 • updated 4.7 years ago by alexisdereeper30
50
votes
2
answers
40k
views
10 follow
2
answers
25
votes
8
answers
39k
views
14 follow
8
answers
52
votes
6
answers
37k
views
15 follow
6
answers
Converting Bam To Fastq
next-gen fastq format tool sequencing written 10.6 years ago by Zach Stednick650 • updated 3.9 years ago by Biostar ♦♦ 20
37
votes
2
answers
37k
views
6 follow
2
answers
What Is Snp Calling?
next-gen snp sequencing written 10.6 years ago by Giovanni M Dall'Olio27k • updated 9.9 years ago by Joesoap0
17
votes
2
answers
37k
views
8 follow
2
answers
What'S The Meaning Of "Bridge Pcr" In The Next Generation Sequencing
pcr sequencing written 7.4 years ago by weiqiangduan130 • updated 7.4 years ago by William4.7k
29
votes
1
answer
35k
views
9 follow
1
answer
Meaning Of Fpkm Value Used By Cufflinks
tophat next-gen cuffdiff sequencing cufflinks gene written 9.3 years ago by Oliver230 • updated 9.3 years ago by Karl340
100
votes
17
answers
35k
views
53 follow
17
answers
Gene Fusion Detection: Rna-Seq Data
fusion next-gen rna-seq sequencing written 8.5 years ago by KS370 • updated 23 months ago by Shixiang70
94
votes
15
answers
33k
views
28 follow
15
answers
What Is The Quickest Algorithm For Range Overlap?
python database next-gen alignment sequencing written 10.3 years ago by User 1586280 • updated 2.5 years ago by endrebak840
270
votes
11
answers
33k
views
192 follow
11
answers
72
votes
5
answers
32k
views
18 follow
5
answers
About Paired-End Sequencing
short duplicates next-gen tool sequencing written 10.6 years ago by Pierre Lindenbaum131k • updated 9.6 years ago by Ketil4.0k
47
votes
7
answers
29k
views
23 follow
7
answers
How To Get Number Of Reads In Bam File Efficiently In Python?
python next-gen samtools sequencing written 10.4 years ago by User 9996810 • updated 2.2 years ago by Arindam Ghosh340
66
votes
8
answers
28k
views
26 follow
8
answers
Rna-Seq Pipeline
rna next-gen pipeline rna-seq sequencing written 10.6 years ago by brentp23k • updated 5.3 years ago by Malachi Griffith18k
33
votes
5
answers
27k
views
18 follow
5
answers
How To Extract Reads From Bam That Overlap With Specific Regions?
read next-gen bed sequencing bam coverage written 10.1 years ago by Stew1.4k • updated 6.6 years ago by Alex Reynolds31k
96
votes
8
answers
26k
views
30 follow
8
answers
What Methods Do You Use For In/Del/Snp Calling?
short aligner snp sequencing written 10.7 years ago by Pierre Lindenbaum131k • updated 7.1 years ago by Biostar ♦♦ 20
50
votes
1
answer
26k
views
1
answer
Paired-end reads - what is what?
paired-end rna-seq sequencing written 5.5 years ago by darxsys190 • updated 5.5 years ago by thackl2.8k
38
votes
5
answers
25k
views
17 follow
5
answers
Human Exome Capture Library Coordinates Download
exome agilent next-gen sequencing written 9.9 years ago by Biomed4.7k • updated 7.5 years ago by John St. John1.2k
2
votes
1
answer
25k
views
1
answer
how to install samtools
next-gen sequencing written 4.9 years ago by Chenglin140
51
votes
6
answers
24k
views
17 follow
6
answers
What Metrics Are Best To Describe The "Coverage" Of Rna-Seq Data?
sequencing rpkm next-gen rna data written 10.1 years ago by Bio_X2Y3.9k • updated 4.7 years ago by Biostar ♦♦ 20
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