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1,172 results • Page
1 of 24
Sort: Views
Rank
Views
Votes
Replies
276
votes
39
replies
164k
views
29 follow
Tutorial:
How to download raw sequence data from GEO/SRA
fastq
SRA
bam
GEO
updated 3 days ago by
Ram
38k • written 8.6 years ago by
Obi Griffith
20k
75
votes
22
replies
49k
views
17 follow
How To Download All Sra Samples At Once ?
geo
sra
updated 4 days ago by
Ram
38k • written 9.1 years ago by
biorepine
★ 1.5k
13
votes
3
replies
33k
views
Drawing venn diagram in R
ChIP-Seq
venn-diagram
updated 6 days ago by
Ram
38k • written 7.9 years ago by
Rashedul Islam
▴ 450
251
votes
36
replies
30k
views
27 follow
Forum:
How Do You Manage Your Files & Directories For Your Projects ?
project-management
file-management
updated 4 days ago by
Ram
38k • written 12.9 years ago by
Pierre Lindenbaum
153k
10
votes
10
replies
29k
views
7 follow
How To Download .Gbk Files From Ncbi Website
ncbi
genbank
updated 4 days ago by
Ram
38k • written 11.3 years ago by
Arun
• 0
130
votes
123
replies
29k
views
23 follow
Tutorial:
Survival analysis with gene expression
cox
gene-expression
survival-analysis
geo
updated 5 days ago by
krushnach80
★ 1.1k • written 4.4 years ago by
Kevin Blighe
84k
9
votes
12
replies
28k
views
6 follow
How To Download Gene Sequences From Ncbi Gene
ncbi
fasta
gene
updated 3 days ago by
Ram
38k • written 11.3 years ago by
Pierre
▴ 20
10
votes
7
replies
28k
views
How To Batch Download Journal Papers (Pdf)?
papers
updated 3 days ago by
Ram
38k • written 10.7 years ago by
Hranjeev
★ 1.5k
100
votes
36
replies
27k
views
33 follow
Forum:
List of cloud genomics companies
cloud-genomics
updated 5 days ago by
Simon
▴ 20 • written 9.4 years ago by
14134125465346445
★ 3.6k
6
votes
22
replies
25k
views
12 follow
CluserProfiler message "No gene can be mapped"
R
updated 5 days ago by
joe555
• 0 • written 5.0 years ago by
ARich
▴ 130
49
votes
28
replies
25k
views
12 follow
Trimming A Fastq File Representing Rna-Seq Data
fastq
RNA-seq
updated 7 hours ago by
Ram
38k • written 11.0 years ago by
Varun Gupta
★ 1.2k
13
votes
9
replies
22k
views
6 follow
How To Download Full Genome Sequence
genome
sequence
updated 3 days ago by
Ram
38k • written 11.8 years ago by
Palu
▴ 240
137
votes
42
replies
20k
views
22 follow
Forum:
Are We Rude/Do We Expect Too Much From People Asking Questions On This Forum?
meta
updated 3 hours ago by
Vincent Laufer
★ 2.5k • written 9.8 years ago by
Whetting
★ 1.6k
19
votes
11
replies
18k
views
How to transpose large amounts of datasets in excel
Transpose
excel
updated 3 days ago by
Ram
38k • written 7.7 years ago by
Vanceed
▴ 30
8
votes
6
replies
17k
views
How Can I Download Or Get A Pathway List From Kegg
kegg
pathway
updated 3 days ago by
Ram
38k • written 9.9 years ago by
rezwan.02
▴ 60
7
votes
18
replies
17k
views
How to check if there is any extra space or blank line in the fasta file?
fasta
updated 5 days ago by
Ram
38k • written 7.2 years ago by
seta
★ 1.8k
18
votes
27
replies
17k
views
20 follow
Where Can I Download Vcf Files For Publicly Available Data?
vcf
snp
updated 3 days ago by
Ram
38k • written 11.3 years ago by
Kevin
▴ 640
17
votes
18
replies
16k
views
How to download the complete database Nucleotide collection (nr/nt)?
blast
nr
nt
updated 3 days ago by
Ram
38k • written 3.7 years ago by
marongiu.luigi
▴ 670
9
votes
8
replies
16k
views
Key Passphrase For Ascp File Transfer (Ebi, Ncbi)
ncbi
ascp
aspera
updated 5 days ago by
Ram
38k • written 9.1 years ago by
Gangcai
▴ 230
11
votes
7
replies
14k
views
6 follow
How to extract specific rows based on row number from a file
shell
updated 5 days ago by
Ram
38k • written 4.9 years ago by
vinayjrao
▴ 220
10
votes
18
replies
14k
views
8 follow
Please help with removing spaces from fasta file
fasta
updated 5 days ago by
Ram
38k • written 7.2 years ago by
seta
★ 1.8k
10
votes
10
replies
14k
views
7 follow
Is the heterozygosity flag (--het) in vcftools calculate observed and expected heterozygosity?
vcftools
vcf
updated 10 hours ago by
Kevin Blighe
84k • written 5.6 years ago by
ahmedaljumiliy
▴ 40
13
votes
8
replies
13k
views
Sam To Bed File With Counter Column
bed
sam
updated 7 hours ago by
Ram
38k • written 10.2 years ago by
lsvijfhuizen
▴ 90
23
votes
6
replies
12k
views
List Of File Formats Used In Bioinformatics?
bioinformatics
updated 7 hours ago by
Ram
38k • written 10.4 years ago by
veronicaschroeder78
▴ 140
2
votes
4
replies
12k
views
Parsing A Fasta File In Java
dna
fasta
java
updated 7 hours ago by
Ram
38k • written 10.0 years ago by
J.Ashley
▴ 10
58
votes
23
replies
12k
views
11 follow
Tool:
sra-explorer : find SRA and FastQ download URLs in a couple of clicks
fastq
SRA
updated 4 days ago by
Ram
38k • written 4.1 years ago by
Phil Ewels
★ 1.1k
16
votes
10
replies
12k
views
6 follow
Where Can I Download All Exons Of The Human Genome In Fasta Format (One Big File!) ?
fasta
human-genome
exon
updated 3 days ago by
Ram
38k • written 10.0 years ago by
mariusorion
▴ 60
16
votes
5
replies
11k
views
Phylip To Newick Format Conversion!
phylip
newick
python
updated 4 days ago by
Ram
38k • written 12.9 years ago by
Thaman
★ 3.3k
7
votes
5
replies
11k
views
Error while downloading data using SRA toolkit
sra-toolkit
ChIP-Seq
sra
updated 3 days ago by
Ram
38k • written 6.2 years ago by
bhardwaj1991
▴ 30
15
votes
7
replies
10k
views
Refseq Proteins For A Given Taxid
protein
biopython
refseq
updated 3 days ago by
Ram
38k • written 11.1 years ago by
Chris
★ 1.6k
7
votes
5
replies
10k
views
All The Ligands From Pdb
pdb
updated 3 days ago by
Ram
38k • written 12.0 years ago by
Yogesh Pandit
▴ 520
21
votes
12
replies
9.8k
views
7 follow
An Alternative To Rsync (Or Useful Parameters)
next-gen-sequencing
updated 7 hours ago by
Ram
38k • written 11.4 years ago by
Stefano Berri
4.3k
47
votes
4
replies
9.8k
views
How do experienced people look for full reference genomes?
reference-genome
fasta
updated 3 days ago by
Ram
38k • written 8.8 years ago by
John Smith
▴ 320
6
votes
2
replies
9.7k
views
Tophat Junctions.Bed File
tophat
updated 7 hours ago by
Ram
38k • written 10.9 years ago by
Varun Gupta
★ 1.2k
11
votes
7
replies
9.6k
views
7 follow
Extract reads from bam/sam files using read id
fastq
bam
samtools
alignment
updated 5 days ago by
Ram
38k • written 7.4 years ago by
Chirag Parsania
★ 2.0k
6
votes
2
replies
9.6k
views
Detailed instructions for how to use PAML
PAML
dn-ds
updated 5 days ago by
Ram
38k • written 5.4 years ago by
dixex
▴ 20
2
votes
4
replies
9.5k
views
Gwas Data Download
gwas
updated 3 days ago by
Ram
38k • written 9.7 years ago by
Honey
▴ 200
10
votes
7
replies
9.5k
views
BedTools IntersectBed resulting in Segmentation Fault with BedFile
intersectbed
vcf
bed
bedtools
updated 5 days ago by
Ram
38k • written 8.3 years ago by
ali
• 0
4
votes
9
replies
9.4k
views
Downloading the latest human genome
fasta
human-genome
updated 4 days ago by
Ram
38k • written 5.6 years ago by
KVC_bioinfo
▴ 570
2
votes
8
replies
9.1k
views
Size of typical genomic data
genomic
updated 6 hours ago by
Ram
38k • written 4.9 years ago by
Nicolas Rosewick
10k
12
votes
9
replies
9.1k
views
6 follow
How to download genome assemblies from NCBI with a list of GCA identifiers?
ncbi
Assembly
updated 3 days ago by
Ram
38k • written 4.4 years ago by
O.rka
▴ 650
4
votes
7
replies
8.9k
views
Aspera ENA download: errors and permissions?
aspera
ascp
ena
updated 4 days ago by
Ram
38k • written 4.7 years ago by
f.a.galkin
▴ 40
4
votes
6
replies
8.9k
views
Gsea Pre-Ranked File Format
GSEA
updated 4 days ago by
Ram
38k • written 9.7 years ago by
jerome.lane.34
▴ 70
10
votes
8
replies
8.8k
views
10 follow
How to extract fasta sequences from assembled transcripts generated by Stringtie
fasta
gtf
stringtie
updated 5 days ago by
Ram
38k • written 5.9 years ago by
seta
★ 1.8k
8
votes
12
replies
8.4k
views
7 follow
How to make sure there is no duplicate sequence in a fasta file?
fasta
sequence
updated 5 days ago by
Ram
38k • written 7.5 years ago by
seta
★ 1.8k
0
votes
2
replies
8.3k
views
Downloading data from TCGA Cancergenome.nih.gov
TCGA
updated 4 days ago by
Ram
38k • written 6.7 years ago by
ebrahimiet
▴ 50
13
votes
4
replies
8.1k
views
Downloading Fasta Files
fasta
blast
genome
sequence
updated 3 days ago by
Ram
38k • written 12.4 years ago by
Mcdenzlix
▴ 50
29
votes
14
replies
7.9k
views
7 follow
How To Download All The Introns From Ensembl
ensembl
fasta
intron
updated 3 days ago by
Ram
38k • written 11.6 years ago by
Anima Mundi
★ 2.9k
4
votes
12
replies
7.9k
views
how is obtained the BED score values (the 5th column of the bed files) in BED files
ChIP-Seq
BED
updated 5 days ago by
Ram
38k • written 6.2 years ago by
fusion.slope
▴ 250
26
votes
4
replies
7.6k
views
How To Download All The Introns From Ucsc
fasta
intron
assembly
ucsc
updated 3 days ago by
Ram
38k • written 11.3 years ago by
Anima Mundi
★ 2.9k
1,172 results • Page
1 of 24
Recent Votes
smoothing or binning bigWig file
List of Ongoing and Planned Long Read Sequencing studies?
Are We Rude/Do We Expect Too Much From People Asking Questions On This Forum?
Answer: Read lengths greater than insert length
A: Changing Output From Gene ID to Symbol When Running findMarkers from Scran
Answer: BLAST Database error: No alias or index file found for nucleotide database
Answer: How to get gene from PSIBLAST resuts
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Comment: split fasta file to train deep learning model
by
pinheirofabiano
▴ 10
@shenwei356, thank you very much for your help, perfect! But now I realized that some fasta sequences contain the letter "B", which is ou…
Comment: Most efficient way to run Diamond against a very very large database (i.e., NCBI
by
Mensur Dlakic
★ 23k
I think it depends on the speed of your local disks and the memory amount. On a single node, breaking up the database doesn't sound like a …
Comment: Sample size for population genetics
by
Jeremy Leipzig
21k
Other populations just make the model harder to generalize, not easier.
Comment: Are We Rude/Do We Expect Too Much From People Asking Questions On This Forum?
by
Vincent Laufer
★ 2.5k
i think there is some of that - my most upvoted comment of all time was a dismissive comment i made while extremely tired. for context i ha…
Comment: Molecular biologist / clinical pharmacologist (f/m/d)
by
Jeremy
▴ 770
Is this job on site in Vienna or remote?
Comment: smoothing or binning bigWig file
by
rls_08
▴ 40
if you use bigwigCompare , that would not create a sliding window, but instead, it will output the mean for each bin, according to the -bin…
Comment: Sample size for population genetics
by
zimmer.schweiz
• 0
Thank you so much for your answer. For common polygenic diseases, would it make sense to increase the number of populations sampled, in ord…
Answer: Sample size for population genetics
by
Jeremy Leipzig
21k
For a rare penetrant monogenic disease? A few cases. For a common polygenic disease or trait? 500k-10M
Answer: using GRanges metadata to constrain overlap searches between objects
by
seidel
11k
Rather than do all overlaps all the time for all samples, why not restrict the data by sample when you can. The code below works about 4 ti…
Comment: How to get gene from PSIBLAST resuts
by
Tom
• 0
Hello, thank you for your answer, I have a question, Why the information from the GFF file and from the feature table is different? I see …
Comment: SNP ID (rsID) to Chr no. and Position
by
Jewahir
• 0
Yeah, thank you for that!!
Comment: 1000 genomes hg38 with dbSNP rsid
by
Ram
38k
It should be pretty straightforward. Just to save you some pain, run these on the 1000g VCF once you download it: 1. `vt decompose -s` to …
Comment: 1000 genomes hg38 with dbSNP rsid
by
Vince
▴ 150
Yeah, I had some hope that I wouldn't need to mess with doing this ...
Answer: counting the unmapped reads
by
chemkhi.ali13
• 0
> Hi all, > > I have a sam file, my supervisor asked me to count the number of > unmapped reads, which command I should use? > > sam…
Comment: 1000 genomes hg38 with dbSNP rsid
by
Ram
38k
In that case, you'll need to get the VCF from 1000g - that's probably going to be the only place where individual level data is available, …
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