Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : all time
all time
today
this week
this month
this year
1,000 results • Page
6 of 20
Sort: Views
Rank
Views
Votes
Replies
63
votes
16
replies
43k
views
11 follow
How To Analyze Imputed Gwas Data
gwas
r
snp
imputation
plink
updated 3.9 years ago by
Mahan
▴ 70 • written 13.1 years ago by
Stephen
2.8k
18
votes
21
replies
43k
views
11 follow
R org.Hs.eg.db matching ensembl gene ids with gene symbol
bioconductor
R
updated 2.6 years ago by
tlaguna
▴ 10 • written 8.2 years ago by
User6891
▴ 330
48
votes
33
replies
43k
views
16 follow
Extract A Group Of Fasta Sequences From A File
fasta
python
perl
biopython
bioperl
updated 2.4 years ago by
Ram
43k • written 13.8 years ago by
Kyle
▴ 60
2
votes
4
replies
43k
views
python 3.8 'No module named pip'
rna-seq
updated 2.9 years ago by
linehammer
▴ 10 • written 3.8 years ago by
amandanm
• 0
105
votes
26
replies
43k
views
23 follow
How To Create Mutation Diagram In R Or In Any Tools?
mutation
domain
r
updated 7 months ago by
zx8754
11k • written 11.3 years ago by
henryvuong
▴ 810
15
votes
12
replies
43k
views
8 follow
Intall local BLAST in Ubuntu
blast
local
system
requirement
Ubuntu
updated 3.9 years ago by
brian.fristensky
▴ 460 • written 6.7 years ago by
Kanchana Sankalpa
▴ 30
39
votes
17
replies
43k
views
13 follow
Extract Cds Fastas From A Gff Annotation + Reference Sequence
gff
CDS
updated 14 months ago by
Ram
43k • written 11.9 years ago by
Federico Giorgi
▴ 730
40
votes
4
replies
42k
views
What Is Snp Calling?
snp
next-gen
sequencing
snp
updated 13.3 years ago by
Joesoap
• 0 • written 14.0 years ago by
Giovanni M Dall'Olio
28k
81
votes
21
replies
42k
views
15 follow
How To Get Bed File Containing Exons Of Canonical Transcripts And Their Corresponding Gene Symbols
bed
transcript
ucsc
biomart
updated 7 months ago by
Joel Wallenius
▴ 210 • written 10.2 years ago by
pristanna
▴ 750
10
votes
16
replies
42k
views
6 follow
Beginner in Python- need in assistance translating DNA into protein sequence
python
updated 3.2 years ago by
maram.mostafa08800
• 0 • written 7.4 years ago by
oki4
▴ 10
20
votes
4
replies
42k
views
what does a log 2-fold change values of mean ?
motif
microarray
gene
genesequencing
sequencing
5.5 years ago by
a4appy23
▴ 50
45
votes
7
replies
42k
views
9 follow
Any Good Bam And Sam Viewer?
viewer
sam
bam
updated 2.3 years ago by
Ram
43k • written 12.6 years ago by
Ken
▴ 160
18
votes
6
replies
42k
views
How can I convert -log10 (p-value) to p-value?
p-value
updated 18 months ago by
1769mkc
★ 1.2k • written 5.3 years ago by
somayeh bakhshalizadeh
▴ 80
60
votes
12
replies
42k
views
10 follow
Get chromosome sizes from fasta file
genome
ucsc
updated 18 months ago by
jamesogilvie1
• 0 • written 8.3 years ago by
rioualen
▴ 710
26
votes
13
replies
42k
views
7 follow
what is the difference between GRCh37 and hg19 ?
RNA-Seq
Assembly
genome
alignment
updated 2.1 years ago by
Ram
43k • written 9.4 years ago by
jack
▴ 960
40
votes
13
replies
42k
views
8 follow
Difference between FC and LogFC
r
microarray
updated 2.3 years ago by
琪
• 0 • written 6.0 years ago by
Joe Kherery
▴ 120
23
votes
4
replies
42k
views
What is the difference between GTF AND GFF format
RNA-Seq
updated 10.0 years ago by
jason
▴ 160 • written 10.0 years ago by
Y Tb
▴ 230
14
votes
6
replies
42k
views
7 follow
How To Convert A Fasta Or Alignment File To Nexus (.Nex) File That Is To Be Used In The Beast Program
updated 20 months ago by
kamiljaron
▴ 220 • written 10.7 years ago by
triinlakspere
▴ 20
39
votes
9
replies
42k
views
6 follow
Batch effects : ComBat or removebatcheffects (limma package) ?
limma
sva
Combat
batch-effect
updated 10 days ago by
Ram
43k • written 6.7 years ago by
lessismore
★ 1.3k
42
votes
21
replies
42k
views
11 follow
Comparing 2 Large Lists (Millions Of Rows) To Identify Shared And Exclusive Elements
unix
list
intersect
updated 2.4 years ago by
Ram
43k • written 11.2 years ago by
Bioinfosm
▴ 620
46
votes
9
replies
42k
views
9 follow
How To Convert Centimorgan To Base Pair
genetics
distance
updated 19 months ago by
Ram
43k • written 12.3 years ago by
Aurgha
▴ 90
16
votes
5
replies
42k
views
Understand Samtools View Output
samtools
updated 2.5 years ago by
Ram
43k • written 12.8 years ago by
Zhshqzyc
▴ 520
64
votes
24
replies
42k
views
12 follow
How to extract unique mapped results from Bowtie2 bam results?
alignment
updated 16 months ago by
Ram
43k • written 9.9 years ago by
zhwjmch
▴ 170
33
votes
4
replies
42k
views
What read lengths are produced by modern Illumina sequencers?
read-length
dna
illumina
updated 2.3 years ago by
Ram
43k • written 9.9 years ago by
John Smith
▴ 320
29
votes
5
replies
41k
views
What Does Up-Regulated And Down-Regulated Mean?
updated 2.3 years ago by
BioNerd
• 0 • written 12.0 years ago by
kate
▴ 100
53
votes
21
replies
41k
views
12 follow
How To Filter Multi Fasta By Length??
awk
updated 5.7 years ago by
Ram
43k • written 10.7 years ago by
HG
★ 1.2k
4
votes
4
replies
41k
views
How to convert a URL into a DOI programmatically
pubmed
doi
url
written 7.6 years ago by
entheologist33
▴ 100
13
votes
8
replies
41k
views
6 follow
Bowtie2 Ubuntu Installation
ubuntu
bowtie
updated 3.3 years ago by
saritamaurya
• 0 • written 11.7 years ago by
Nasrin
▴ 30
50
votes
21
replies
41k
views
11 follow
How Do You Justify Your Rna-Seq Expression Threshold (Fpkm/Rpkm) ?
rpkm
rna-seq
cutoff
fpkm
updated 2.5 years ago by
Ram
43k • written 11.3 years ago by
biorepine
★ 1.5k
18
votes
5
replies
41k
views
R - pheatmap - changing column order
pheatmap
heatmap
R
updated 2.4 years ago by
Ram
43k • written 9.7 years ago by
piotr.grabowski
▴ 60
33
votes
12
replies
41k
views
8 follow
How To Find Paralogs Using Blast
homology
blast
updated 12.1 years ago by
Larry_Parnell
16k • written 12.7 years ago by
ngsgene
▴ 380
26
votes
19
replies
41k
views
7 follow
Fasta File Vs Fa File
fasta
sequence
updated 12.8 years ago by
brentp
24k • written 12.8 years ago by
Zhshqzyc
▴ 520
206
votes
58
replies
41k
views
31 follow
Forum:
Will Python Take The Place Of R?
r
statistics
python
biopython
updated 14 months ago by
Ram
43k • written 10.9 years ago by
Medhat
9.7k
6
votes
7
replies
41k
views
6 follow
Bowtie Building Index Issue
bowtie
bowtie2
genome
updated 11.9 years ago by
Istvan Albert
100k • written 11.9 years ago by
Arpssss
▴ 40
82
votes
13
replies
41k
views
7 follow
Ti/Tv Ratio Confirms Snp Discovery. Is This A General Rule?
snp
snp
updated 3.7 years ago by
Biostar
20 • written 13.3 years ago by
Yahan
▴ 210
42
votes
4
replies
41k
views
What Control For Chip-Seq: Input, Igg Or Untagged Strain?
chip-seq
updated 12.3 years ago by
Ying W
★ 4.2k • written 12.3 years ago by
Olbzn
▴ 180
17
votes
7
replies
41k
views
6 follow
Calculating Genomic Inflation Factor
gwas
plink
updated 7.3 years ago by
GabrielMontenegro
▴ 670 • written 12.0 years ago by
Debs
▴ 30
27
votes
12
replies
41k
views
7 follow
Log2 Ratio or Log2 Fold Change - terminology confusion and which one should I use?
genome
updated 21 months ago by
obidobi
▴ 30 • written 7.5 years ago by
Genosa
▴ 160
49
votes
23
replies
40k
views
13 follow
Concatenating fastq.gz files across lanes
RNA-Seq
updated 2.2 years ago by
D
▴ 10 • written 5.9 years ago by
volvicpellegrino
▴ 40
6
votes
11
replies
40k
views
Finding The Mean Of Values In A Single Column
r
updated 10.5 years ago by
Michael
54k • written 10.5 years ago by
robjohn7000
▴ 110
52
votes
14
replies
40k
views
15 follow
Converting Bam To Fastq
next-gen-sequencing
fastq
updated 5 months ago by
Pierre Lindenbaum
161k • written 14.0 years ago by
Zach Stednick
▴ 660
13
votes
10
replies
40k
views
7 follow
How To Uncompress The 1000 Genome Vcf.Gz File
updated 2.6 years ago by
tcarter.era
• 0 • written 11.5 years ago by
GPR
▴ 390
17
votes
25
replies
40k
views
7 follow
Remove columns and rows which have only NAs without deleting all the data
missing data
R
correlation
SNPs
updated 5.4 years ago by
slegotsky
• 0 • written 6.8 years ago by
ElenaL
• 0
35
votes
11
replies
40k
views
9 follow
Is It Possible To Get Fragment Length, Read Length And Number Of Fragments From A Bam/Sam File
bam
next-gen
updated 7.3 years ago by
jerry
▴ 130 • written 11.2 years ago by
samsara
▴ 630
36
votes
8
replies
40k
views
9 follow
Difference Between "Mate Pair" And "Pair-End"
paired-end
ngs
library
updated 16 months ago by
cmdcolin
★ 3.8k • written 10.8 years ago by
weiqiangduan
▴ 150
28
votes
10
replies
40k
views
6 follow
Extract subset of samples from multigenome vcf file
vcf
8.1 years ago by
MAPK
★ 2.1k
58
votes
25
replies
40k
views
15 follow
Tutorial:
Protocol To Downlad TCGA Data From GDC
GDC
methylation
TCGA
updated 13 months ago by
Ram
43k • written 7.8 years ago by
Shicheng Guo
★ 9.4k
15
votes
2
replies
40k
views
what is difference between sequence adapter and PCR primer?
adapter
pcr
updated 15 months ago by
Ram
43k • written 8.9 years ago by
xiangwulu
▴ 120
160
votes
19
replies
40k
views
16 follow
Why Does Rna-Seq Read Count Fit Poisson Distribution?
rna-seq
modeling
updated 2.3 years ago by
Ram
43k • written 10.5 years ago by
sckinta
▴ 730
16
votes
8
replies
40k
views
7 follow
LogFC and LogCPM
rna-seq
updated 2.8 years ago by
mohammedtoufiq91
▴ 250 • written 7.0 years ago by
silas008
▴ 170
1,000 results • Page
6 of 20
Recent Votes
Calculate Allele balance by sample
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
Answer: Is there a tool that sorts gtf files?
Answer: gvcf joint calling
Answer: Heatmap and rna-seq
Answer: How to use limma to find differentially expressed genes in response to a continu
A: Blast Settings For Short Sequences
Recent Locations •
All
Whitefish, MT,
3 minutes ago
ETH Zurich,
9 minutes ago
United States,
9 minutes ago
India,
9 minutes ago
Italy,
14 minutes ago
United States,
18 minutes ago
India,
20 minutes ago
Recent Awards •
All
Popular Question
to
rohitsatyam102
▴ 850
Popular Question
to
candron
▴ 10
Scholar
to
Alex Reynolds
35k
Popular Question
to
chaco001
▴ 40
Commentator
to
GenoMax
141k
Popular Question
to
rheab1230
▴ 140
Popular Question
to
BioinfGuru
★ 1.7k
Recent Replies
Comment: different FeatureCounts output for the same data
by
Istvan Albert
100k
just to clarify, it is not that the program algorithm works differently but the meaning of the flags changed; before -p was sufficient to…
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
by
BioinfGuru
★ 1.7k
Thanks Ram. Using merge maxed out my ram on a large list, but your suggestion directed me to purrr::reduce which works great.
Comment: ScRNA data question
by
starswillfade
▴ 10
features <- SelectIntegrationFeatures(object.list = merged_dat) data.anchors <- FindIntegrationAnchors(object.list = merged_dat, …
Comment: gvcf joint calling
by
zihanss
• 0
Thank you for your help! I really appreciate it! And you know, the merged WES gVCF files still have "NA" loci. For such cases, I am quite …
Comment: Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
by
Guille
• 0
Thank you for your answer! The MDS plot seems to group most treatment groups close-by, so I'm starting to suspect the effect of treatment …
Answer: Help understanding how KEGG Ortholog `K00004 ` has 3 ECs associated with it (EC:
by
Mensur Dlakic
★ 27k
They say that we remember better things we figured out on our own, rather than things we were taught. You were literally two clicks away fr…
Comment: Heatmap and rna-seq
by
dsull
★ 5.8k
https://maayanlab.cloud/clustergrammer/ It's a web-based tool (can also be a python jupyter widget) that I find useful for exploring a pat…
Answer: Limma Analysis Agilent Microarray Data (GPL1708)
by
Gordon Smyth
★ 7.0k
There is an Agilent array case study in the limma User's Guide, which you might find helpful and somewhat simpler. I don't recommend col…
Answer: Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
by
Gordon Smyth
★ 7.0k
The comparison you've done seems exactly right to test whether treatment 2 modifies or enhances the effect of treatment 1. Have you exam…
Answer: How to use limma to find differentially expressed genes in response to a continu
by
Gordon Smyth
★ 7.0k
There's no need for form a contrast because the score variable is already in the model. A continuous variable is its own contrast. Just run…
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
▴ 10
Oh wow, bedops closest-features, how did I overlook that!! I didn't know about it; thank you! Your awk script is beautiful. This worked per…
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
▴ 10
Thank you Pierre! I'll try this out with my full data set.
Answer: DNA methylation preprocessing
by
cao510927
▴ 30
I happend to see one paper doing the similar thing, share it with you guys, "A systematic evaluation of normalization methods and probe rep…
Answer: Create a new bed file with all pairwise combinations between two other bed files
by
Alex Reynolds
35k
I think Pierre's answer might be correct for your test input, but it doesn't account for the start position of the reference element and so…
Comment: Highest variable features in single cell data
by
bk11
★ 2.4k
You need to be clear about how `Seurat` defines highly variable genes here. Highly variable genes are the genes that have very high express…
Traffic: 1795 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6