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12,648 results • Page
3 of 253
Sort: replies
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Views
Votes
Replies
17
votes
25
replies
2.4k
views
Tool:
Platform for Bioinformatics Students, Scholars and Scientists
sequence
genome
updated 10 months ago by
Ram
43k • written 8.2 years ago by
support
▴ 50
64
votes
24
replies
3.1k
views
12 follow
Forum:
How much I must feel useless?
machine-learning
Programming
statistics
updated 11 months ago by
Ram
43k • written 5.6 years ago by
Molecular_genetics
▴ 80
87
votes
24
replies
24k
views
17 follow
Tutorial:
Gene Set Enrichment Analysis
microarray
enrichment
RNA-Seq
GSEA
updated 4 weeks ago by
Gordon
• 0 • written 3.6 years ago by
Hamid Ghaedi
3.2k
38
votes
24
replies
2.3k
views
10 follow
NGS forensics: how to know if data is fabricated
fastq
STAR
NGS
Illumina
updated 17 days ago by
i.sudbery
19k • written 20 days ago by
noodle
▴ 580
27
votes
24
replies
2.5k
views
7 follow
Code Golf - bisulfite conversion
bisulfite
bsseq
code-golf
updated 11 months ago by
Ram
43k • written 5.6 years ago by
Chris Miller
22k
20
votes
24
replies
7.0k
views
6 follow
Forum:
Python or R
RNA-Seq
alignment
next-gen-sequencing
updated 12 months ago by
Ram
43k • written 6.0 years ago by
Qingyang Xiao
▴ 160
65
votes
24
replies
17k
views
14 follow
Mapping Snps To Pathways
snp
genotyping
pathway
gene
enrichment
updated 7 months ago by
Ram
43k • written 14.2 years ago by
Pierre Lindenbaum
161k
4
votes
24
replies
6.1k
views
Split a concatenated alignment in multiple files
alignment
fasta
updated 7 months ago by
Felipe
• 0 • written 9.2 years ago by
dago
★ 2.8k
80
votes
24
replies
11k
views
18 follow
Which Bioinformatics Journals Do You Follow?
bioinformatics-journal
updated 6 months ago by
Ram
43k • written 14.1 years ago by
Giovanni M Dall'Olio
28k
159
votes
24
replies
63k
views
19 follow
Recommended Tools For Alternative Splicing Detection From Rna-Seq Data
alternative-splicing
splicing
rna-seq
updated 11 months ago by
Ram
43k • written 11.2 years ago by
Nicolas Rosewick
11k
48
votes
24
replies
8.3k
views
14 follow
Tool:
Hera: A new tool for RNA-Seq analysis
kallisto
RNA-Seq
STAR
gene-fusion
updated 10 months ago by
Ram
43k • written 6.8 years ago by
sonpham
▴ 580
15
votes
24
replies
2.6k
views
7 follow
Forum:
Airport.bio: First class ticket to any biological database in the world
RNA-Seq
ChIP-Seq
SNP
updated 12 months ago by
Ram
43k • written 6.1 years ago by
Bohdan Khomtchouk
▴ 350
93
votes
23
replies
93k
views
15 follow
Tutorial:
How to Install SamTools, HTSLib, and BCFTools on Ubuntu 18.04
bcftools
samtools
htslib
updated 3 months ago by
clara.apicella
• 0 • written 5.8 years ago by
otwtgin2010
▴ 610
12
votes
23
replies
8.5k
views
6 follow
motif search with ATAC-seq
motif-search
ATAC-seq
updated 11 months ago by
Ram
43k • written 5.6 years ago by
grant.hovhannisyan
★ 2.6k
56
votes
23
replies
5.1k
views
10 follow
Tool:
ASCIIGenome: Text Only Genome Viewer!
terminal
genome-browser
java
ASCIIGenome
updated 10 months ago by
Ram
43k • written 7.8 years ago by
dariober
14k
34
votes
23
replies
22k
views
12 follow
Is there a tool that sorts gtf files?
RNA-Seq
genome
updated 8 months ago by
alejandrogzi
▴ 120 • written 6.1 years ago by
JJ
▴ 680
6
votes
23
replies
26k
views
6 follow
devtools Installation error in R (version 3.5.3)?
github
R
phylogeny
devtools
updated 11 months ago by
Ram
43k • written 5.1 years ago by
Kumar
▴ 120
18
votes
23
replies
7.8k
views
7 follow
How to exclude some of breast cancer subtypes just by looking at gene expression?
RNA-Seq
genome
cancer
gene
updated 10 months ago by
Safu
• 0 • written 6.5 years ago by
jack
▴ 970
31
votes
23
replies
30k
views
15 follow
Amino Acid Change To Genomic Location
snp
amino-acids
updated 4 months ago by
gernophil
▴ 80 • written 12.4 years ago by
Preethi
▴ 110
20
votes
23
replies
7.3k
views
6 follow
Tool:
EaSeq - Interactive ChIP-seq analysis and visualization (for Windows)
easeq
Windows
Visualization
ChIP-Seq
updated 10 months ago by
Ram
43k • written 8.1 years ago by
Mads Lerdrup
▴ 460
39
votes
23
replies
35k
views
11 follow
bcftools: error while loading shared libraries: libcrypto.so.1.0.0: cannot open shared object file: No such file or directory
bcftools
updated 8 months ago by
s.w.vanderlaan
▴ 40 • written 2.8 years ago by
Michal Nevo
▴ 130
6
votes
23
replies
1.5k
views
How to speed Salmon index up
metagenome
genome
salmon
4 months ago by
young_bioinformatician
▴ 230
40
votes
23
replies
4.2k
views
12 follow
Forum:
Why learn programming in bioinformatics?
Programming
updated 11 months ago by
Ram
43k • written 5.7 years ago by
joselu
▴ 110
23
votes
23
replies
9.9k
views
6 follow
How to see if adjusting batch effect in RNA-seq is working or not
RNA-Seq
removeBatchEffect
batch-effect
edger
updated 4 weeks ago by
Ram
43k • written 5.4 years ago by
iraia.munoa
▴ 130
68
votes
23
replies
49k
views
8 follow
extract dendrogram cluster from pheatmap
R
updated 8 weeks ago by
Getnet Tesfaw
• 0 • written 6.5 years ago by
1769mkc
★ 1.2k
61
votes
23
replies
57k
views
15 follow
How Can I Know The Length Of Mapped Reads From Bam File?
bam
mapping
updated 5 months ago by
Lluís R.
★ 1.2k • written 11.2 years ago by
Jordan
★ 1.3k
9
votes
23
replies
9.8k
views
Tool:
BioLabDonkey - new Mac program for molecular biologists
software
biolabdonkey
6 days ago by
vytarasov
▴ 180
33
votes
23
replies
4.3k
views
8 follow
Forum:
Is there a file format better suited for the era of pangenomics than the .vcf? What are its attributes?
VCF
file-format
genomics
updated 11 months ago by
Jeremy Leipzig
22k • written 11 months ago by
LauferVA
4.2k
11
votes
23
replies
1.7k
views
gatk Hardfilter Error
hardfilter
updated 11 months ago by
Michael
54k • written 11 months ago by
bestone
▴ 30
66
votes
23
replies
11k
views
9 follow
Using Hdf5 To Store Bio-Data
hdf5
storage
database
updated 7 months ago by
Ram
43k • written 14.2 years ago by
Pierre Lindenbaum
161k
11
votes
22
replies
4.3k
views
No significant DEG: A request to double check my commands for limma.
limma
differential-gene-expression
updated 5 weeks ago by
Ram
43k • written 5.1 years ago by
RNAseqer
▴ 270
3
votes
22
replies
4.1k
views
GRanges objects don't support [[, as.list(), lapply(), or unlist() at the moment
GRanges
updated 10 months ago by
Amitm
★ 2.2k • written 14 months ago by
Antonia
• 0
31
votes
22
replies
13k
views
6 follow
Tool:
SeqKit: a cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang
FASTQ
SeqKit
FASTA
updated 11 months ago by
Ram
43k • written 7.6 years ago by
shenwei356
8.5k
28
votes
22
replies
58k
views
11 follow
How To Convert List Of Entrez Ids Into Gene Name
r
genomics
entrez
updated 10 months ago by
cwang3444
• 0 • written 11.1 years ago by
grosy
▴ 90
1
vote
22
replies
2.1k
views
error with Tximport when txOut = TRUE
tximport
R
updated 10 months ago by
Ram
43k • written 10 months ago by
mbansal
• 0
26
votes
22
replies
14k
views
10 follow
Tool:
BBSketch - A Tool for Rapid Sequence Comparison
minhash
sketch
bbmap
blast
updated 12 months ago by
Ram
43k • written 7.3 years ago by
Brian Bushnell
20k
5
votes
22
replies
12k
views
sra toolkit program fastq-dump question.
sratoolkit
fastq-dump
updated 10 months ago by
Ram
43k • written 9.3 years ago by
jinhwa1112
▴ 10
12
votes
22
replies
2.0k
views
Can anyone simplify GATK installation
GATK
4 months ago by
Tundup
• 0
34
votes
22
replies
3.0k
views
11 follow
Forum:
Have we failed as bioinformatician in this time of COVID-19
Bioinformatician
COVID-19
updated 11 months ago by
Ram
43k • written 4.0 years ago by
heididunst
▴ 10
15
votes
22
replies
8.7k
views
What Are The Most Reliable Normalization Methods For Microarrays?
microarray
updated 6 months ago by
Ram
43k • written 14.2 years ago by
Jarretinha
3.4k
24
votes
22
replies
27k
views
11 follow
replace fasta headers with another name in a text file
perl
updated 10 months ago by
nr299
• 0 • written 9.9 years ago by
Jemo
▴ 60
138
votes
22
replies
66k
views
15 follow
How do I explain the difference between edgeR, LIMMA, DESeq etc. to experimental Biologist/non-bioinformatician
gene
LIMMA
edgeR
updated 11 months ago by
Kevin Blighe
88k • written 6.5 years ago by
Mike
★ 1.9k
11
votes
22
replies
4.6k
views
7 follow
Which New Bioinformatics Related Tool Would You Appreciate The Most?
programming
updated 10 months ago by
Ram
43k • written 11.8 years ago by
Biomonika (Noolean)
3.2k
57
votes
22
replies
29k
views
7 follow
Batch correction in DESeq2
Combat
DESeq2
Batch-Effect
updated 6 weeks ago by
Ram
43k • written 4.6 years ago by
Arindam Ghosh
▴ 510
13
votes
22
replies
11k
views
SVA : Setting up the data from an ExpressionSet and applying sva function to extimate batches
sva
combat
batch-effect
updated 4 weeks ago by
Ram
43k • written 6.8 years ago by
lessismore
★ 1.3k
13
votes
21
replies
1.9k
views
Practical Haplotype Graph Paths
practical-haplotype-graph
PHG
updated 3 months ago by
pjb39
▴ 210 • written 6 months ago by
micah_k
▴ 10
23
votes
21
replies
9.0k
views
9 follow
fastest UMAP method
UMAP
R
updated 6 months ago by
Mensur Dlakic
★ 27k • written 4.5 years ago by
grey
▴ 30
60
votes
21
replies
3.9k
views
14 follow
Reproduce the article "The complete sequence of a human genome."
genome
assembly
updated 8 months ago by
Michael
54k • written 8 months ago by
sqshigg
▴ 60
48
votes
21
replies
5.1k
views
9 follow
What Online Gene-Centric Resources Do You Use?
gene
database
updated 6 months ago by
Ram
43k • written 14.1 years ago by
Andrew Su
4.9k
15
votes
21
replies
1.1k
views
Expression analysis of LncRNA from RNA-seq data
expression
lncrna
3 months ago by
analyst
▴ 50
12,648 results • Page
3 of 253
Recent Votes
Answer: ChatGPT optimized for bioinformatics questions
Comment: ChatGPT optimized for bioinformatics questions
C: How can I perform Differential expression analysis with just one control and one
C: How can I perform Differential expression analysis with just one control and one
C: How can I perform Differential expression analysis with just one control and one
How can I perform Differential expression analysis with just one control and one cancer sample?
Comment: scRNAseq Differential expression analysis
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dsull
★ 6.0k
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finswimmer
16k
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• 0
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Umer
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Recent Replies
Comment: how to treat the replicates while performing WGCNA
by
mavy
▴ 10
Thank you so much for your response . Really appreciate it. I will try the way you mentioned and will get back if I have any query
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
i have the same error, i used high performance computer, here is my code to set memory. srun --nodes=1 --ntasks=1 --cpus-per-task=24 -…
Comment: Overlapping Ranges within Granges object
by
Alex Reynolds
35k
Yes, `bedmap` will perform operations on one or two BED files.
Comment: B allele frequency (BAF)
by
aidangcruickshank
▴ 10
Apologies for resurrecting this post, but any idea what that functions "regions" paramater takes? Would it be a GRanges object? The documen…
Comment: How to handle duplicated genes in TCGA data?
by
Ngrin
• 0
Thanks @txema.heredia.The tool I am going to use only accepts gene symbols. This is the reason. So I cannot use ENS IDs.
Answer: Design for complex RNA-Seq experiment using Deseq2
by
swbarnes2
14k
This is a rather small experiment, I don't know that you can establish a meaningful baseline for each patient with a single pre sample, and…
Comment: GG Sankey plot
by
LauferVA
4.2k
@bk11 i changed this comment to an answer. if you disagree please let me know. thanks for sharing your knowledge. VAL
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
hannes.bongartz
• 0
Thanks for the input. Unfortunately, that didn't help either. I appreciate any other tips. Thank you
Answer: GG Sankey plot
by
bk11
★ 2.5k
You need to change your data table into a 'long' format. You can do something like this- GOs_childs_recursive <- GOs_childs_recursive …
Answer: Trimming tool
by
ntsopoul
▴ 60
I use Trim Galore which automatically recognizes adaptors. https://github.com/FelixKrueger/TrimGalore Here is the script I am using for…
Answer: Trimming tool
by
GenoMax
142k
There are plenty. `bbduk.sh` from BBMap suite (https://jgi.doe.gov/data-and-tools/software-tools/bbtools/bb-tools-user-guide/bbduk-guide/ )…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
bk11
★ 2.5k
Please check out [in this link.][1] [1]: https://github.com/jokergoo/ComplexHeatmap/issues/349
Comment: Reconstruction of locus, order contigs
by
dthorbur
★ 2.0k
[Here](https://www.biostars.org/p/9544689/) is a forum post that may answer your question.
Comment: how to treat the replicates while performing WGCNA
by
andres.firrincieli
3.6k
> 1) I do not want to merge the MEs rather I asked about replicates, as > some replicates of same sample are showing different behavior for…
Comment: How to systematically check if a bam file is truncated
by
alanh
▴ 170
For more details about what `samtools quickcheck` actually checks for, add a few `-v`'s to the command line. $ samtools quickcheck -…
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