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130
votes
7
answers
136k
views
32 follow
7
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What Is The Sequencing 'Depth' ?
next-gen sequencing written 10.1 years ago by Pierre Lindenbaum128k • updated 6 months ago by Renesh1.8k
110
votes
5
answers
119k
views
23 follow
5
answers
How Can I Convert Bam To Sam?
sequencing next-gen sam conversion bam written 9.9 years ago by Biomed4.6k • updated 6.6 years ago by Chris Miller21k
332
votes
8
answers
117k
views
178 follow
8
answers
232
votes
15
answers
64k
views
78 follow
15
answers
What Is The Best Pipeline For Human Whole Exome Sequencing?
exome illumina next-gen human sequencing written 10.0 years ago by Biomed4.6k • updated 5.3 years ago by Barry40
84
votes
6
answers
56k
views
48 follow
6
answers
How to plot coverage and depth statistics of a bam file
sequencing next-gen coverage bam depth written 6.0 years ago by krithika.gu260 • updated 22 months ago by Fred073060
63
votes
6
answers
54k
views
20 follow
6
answers
50
votes
5
answers
51k
views
23 follow
5
answers
from .BAM to .BAI using samtools
next-gen samtools sequencing written 5.6 years ago by Kizuna800 • updated 4 months ago by Waldeyr Mendes Cordeiro da Silva10
97
votes
5
answers
50k
views
28 follow
5
answers
Is My Bam File Sorted ?
sequencing next-gen bam sort written 9.3 years ago by Pierre Lindenbaum128k • updated 3.2 years ago by martin.triska120
29
votes
3
answers
48k
views
7 follow
3
answers
Minor allele frequency calculation
next-gen snp written 5.6 years ago by Tark50 • updated 14 months ago by pltbiotech_tkarthi180
141
votes
17
answers
47k
views
118 follow
17
answers
Tutorial: Tools For Metagenomic Data Analysis
metagenomics next-gen tutorial written 7.5 years ago by vijay1.5k • updated 21 months ago by MetaTK20
161
votes
15
answers
44k
views
47 follow
15
answers
How To Efficiently Parse A Huge Fastq File?
sequencing fastq next-gen parsing written 8.9 years ago by Panos1.7k • updated 5.7 years ago by bstrs0
40
votes
9
answers
43k
views
15 follow
9
answers
How to count fastq reads
reads sequence fastq next-gen written 5.1 years ago by Chenglin140 • updated 8 weeks ago by sbwiecko10
57
votes
6
answers
41k
views
32 follow
6
answers
Estimate Insert Size In Paired-End/Mate-Pair
next-gen paired alignment sequencing written 8.4 years ago by Ric160 • updated 8.4 years ago by Ketil4.0k
109
votes
8
answers
40k
views
54 follow
8
answers
Workflow Or Tutorial For Snp Calling?
alignment next-gen samtools snp sequencing written 9.1 years ago by Matthieu460 • updated 4.2 years ago by alexisdereeper30
25
votes
8
answers
38k
views
14 follow
8
answers
52
votes
6
answers
36k
views
15 follow
6
answers
Converting Bam To Fastq
next-gen fastq format tool sequencing written 10.1 years ago by Zach Stednick650 • updated 3.3 years ago by Biostar ♦♦ 20
49
votes
2
answers
36k
views
10 follow
2
answers
37
votes
2
answers
36k
views
6 follow
2
answers
What Is Snp Calling?
next-gen snp sequencing written 10.1 years ago by Giovanni M Dall'Olio27k • updated 9.4 years ago by Joesoap0
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 8.8 years ago by Oliver230 • updated 8.8 years ago by Karl330
99
votes
17
answers
34k
views
53 follow
17
answers
Gene Fusion Detection: Rna-Seq Data
fusion next-gen rna-seq sequencing written 8.0 years ago by KS370 • updated 17 months ago by Shixiang50
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 9.8 years ago by User 1586280 • updated 2.0 years ago by endrebak810
72
votes
5
answers
32k
views
18 follow
5
answers
About Paired-End Sequencing
short duplicates next-gen tool sequencing written 10.1 years ago by Pierre Lindenbaum128k • updated 9.1 years ago by Ketil4.0k
65
votes
3
answers
30k
views
39 follow
3
answers
Read Group In Sam/Bam Files: What Do They Exactly Describe?
next-gen samtools bam written 8.1 years ago by Stefano Berri4.1k • updated 4.1 years ago by bshifaw50
17
votes
2
answers
29k
views
12 follow
2
answers
GTF annotation file for Human
next-gen rna-seq written 6.1 years ago by M K490 • updated 6.1 years ago by Dan D7.1k
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 9.8 years ago by User 9996810 • updated 20 months ago by Arindam Ghosh250
20
votes
3
answers
28k
views
5 follow
3
answers
Strand-specific vs. non-strand-specific RNAseq
next-gen strand-specific rna-seq written 5.7 years ago by Y Tb200 • updated 5.7 years ago by Malachi Griffith18k
66
votes
8
answers
27k
views
26 follow
8
answers
Rna-Seq Pipeline
rna next-gen pipeline rna-seq sequencing written 10.0 years ago by brentp23k • updated 4.7 years ago by Malachi Griffith18k
25
votes
2
answers
27k
views
5 follow
2
answers
Running and Analyzing fastqc on multiple fastq files
genome next-gen rna-seq written 5.1 years ago by ravi.uhdnis180 • updated 5.1 years ago by Madelaine Gogol5.1k
28
votes
6
answers
27k
views
19 follow
6
answers
81
votes
9
answers
26k
views
31 follow
9
answers
How To Assess The Quality Of An Assembly? (Is There No Magic Formula?)
assembly quality next-gen written 7.4 years ago by diltsjeri440 • updated 23 months ago by alslonik140
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