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13
votes
1
answer
2.1k
views
9 follow
1
answer
NCBI SRA AWS AMI
ncbi sra aws s3 written 17 months ago by joe • 170
9
votes
5
answers
2.0k
views
5
answers
SRA to fastq
sra fastq next-gen sequencing written 5.3 years ago by aj123 • 80 • updated 9 days ago by sabahali55lolo • 0
7
votes
3
answers
150
views
3
answers
Using unpublished sequence data from Sequence Read Archive (SRA)
archive sra sequence sequencing written 4 weeks ago by wantpicasso • 0 • updated 4 weeks ago by Mensur Dlakic • 8.1k
0
votes
0
answers
163
views
0
answers
HEK Cell lines as Fasta? sratools prefetch cannot locate
sratools sra written 5 weeks ago by acreechristopher • 0
3
votes
1
answer
805
views
1
answer
Forum: Strategies for group submisions to SRA (BioProject)
ncbi sra next-gen forum core facility archive written 2.2 years ago by A. Domingues • 2.4k
0
votes
0
answers
145
views
0
answers
Chip-seq SRA entry: several runs for one sample
sra alignment chip-seq geodataset written 6 weeks ago by jal.fran.jalfrancois • 0
0
votes
0
answers
211
views
0
answers
Analyzing PacBio sequel data and SRA
genome sra next-gen pacbio sequencing written 7 weeks ago by Smandape • 60
3
votes
1
answer
180
views
1
answer
Downloading SRA data
sra rna-seq written 8 weeks ago by angus.j.g.campbell • 0
2
votes
1
answer
175
views
1
answer
How to retrieve an individual read with fastq-dump
sra fastq-dump rna-seq written 8 weeks ago by wmorgan485 • 0
0
votes
0
answers
99
views
0
answers
Deleting group in SRA NCBI database?
ncbi sra written 10 weeks ago by 1234anjalianjali1234 • 30
1
vote
2
answers
173
views
2
answers
Why does this 10x scRNA-seq data set have one read instead of two reads?
10x scrna-seq reads sra written 10 weeks ago by pomodoro_sinensis • 0 • updated 10 weeks ago by GenoMax ♦ 94k
5
votes
4
answers
3.6k
views
4
answers
Download all SRA of one species, organized
ncbi sra biosample edirect written 6.1 years ago by Lee Katz • 3.1k • updated 11 weeks ago by Biostar ♦♦ 20
0
votes
0
answers
199
views
0
answers
Extract SRA reads per RG using fasterq-dump
sra fasterq-dump dbgap written 12 weeks ago by MAPK • 1.7k
0
votes
0
answers
131
views
0
answers
Number of reads in the downloaded fastq file
sra vdb-dump --info read count fasterq-dump written 12 weeks ago by kmkdesilva • 90
0
votes
0
answers
115
views
0
answers
tumor vs matched-normal in SRA
sra written 3 months ago by yakumo • 0
1
vote
1
answer
259
views
1
answer
Parsing SRA summary using Biopython Entrez
python entrez biopython sra xml written 3 months ago by kmyers2 • 40 • updated 3 months ago by Istvan Albert ♦♦ 86k
1
vote
0
answers
232
views
0
answers
SRA file upload in NCBI (error in organism name options in attributes)
ncbi sra uploading sequencing written 3 months ago by Shaminur • 90
0
votes
0
answers
191
views
0
answers
How to generate a Consensus sequence from SRA BLAST output from web server?
consensus sra ngs sequence blast written 3 months ago by lokdeep17 • 0
45
votes
0
answers
4.7k
views
27 follow
0
answers
Tool: sra-explorer : find SRA and FastQ download URLs in a couple of clicks
sra fastq tool sequence-read-archive download written 22 months ago by Phil Ewels • 610 • updated 3 months ago by ATpoint ♦ 44k
0
votes
1
answer
327
views
1
answer
How get read group information from fastq files in SRA
sra fastq read group bwa written 4 months ago by zamani_2012 • 0 • updated 4 months ago by ATpoint ♦ 44k
0
votes
1
answer
216
views
1
answer
SRA to paired fastq per read group
sra ngs written 4 months ago by MAPK • 1.7k • updated 4 months ago by GenoMax ♦ 94k
0
votes
0
answers
196
views
0
answers
Error while converting sra to fastq
ncbi sra fastq dna written 4 months ago by gunavaran.15 • 0
0
votes
1
answer
203
views
1
answer
Convert in fastq format a list of SRA files
sra fastq rna-seq cmd convert written 6 months ago by stefaquara • 0 • updated 4 months ago by ATpoint ♦ 44k
2
votes
1
answer
333
views
1
answer
SRA ftp site change?
sra fastq ftp download written 4 months ago by michael.j.apostolides • 10 • updated 4 months ago by GenoMax ♦ 94k
0
votes
0
answers
2.7k
views
0
answers
A problem with download SRA using SRA toolkit
ncbi sra sra toolkit configuration written 10 months ago by reza • 230 • updated 4 months ago by eynardrenaud • 0
12
votes
1
answer
2.9k
views
8 follow
1
answer
Downloading paired end fastq from SRA
singlecell sra rna-seq written 21 months ago by t.t • 20 • updated 5 months ago by Brunox13 • 30
4
votes
1
answer
237
views
1
answer
How to set sleep in GNU parallel in a esearch/efetch script
ncbi sra shell programming written 5 months ago by MAPK • 1.7k • updated 5 months ago by ole.tange • 3.9k
0
votes
0
answers
205
views
0
answers
Interpreting paired-end tumor-normal WES
exome sra fastq paired-end written 5 months ago by the_darkside • 0
31
votes
3
answers
27k
views
3
answers
How to split paired end SRA file into 2 correct fastq files
sra fastq next-gen written 4.2 years ago by thustar • 100 • updated 5 months ago by Carlo.Ga • 0
6
votes
1
answer
386
views
1
answer
News: NCBI wants to remove quality scores from SRA
sra trimming assembly quality scores genome news written 6 months ago by zhousun21 • 20 • updated 6 months ago by GenoMax ♦ 94k
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