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120,740 results • Page
3 of 2415
Sort: Views
Rank
Views
Votes
Replies
42
votes
9
replies
72k
views
8 follow
Minor allele frequency calculation
SNP
next-gen
updated 2.8 years ago by
Ram
45k • written 10.4 years ago by
Tark
▴ 50
51
votes
15
replies
72k
views
12 follow
Sequence Number Count In Fastq.Gz File
counts
sequence
fastq
updated 2.1 years ago by
Ram
45k • written 13.7 years ago by
Bioscientist
★ 1.7k
1
vote
3
replies
72k
views
Error in loading R package "GO.db" in installing WGCNA R package
R
updated 2.9 years ago by
Ram
45k • written 10.0 years ago by
zaynabmousavian
▴ 10
51
votes
15
replies
72k
views
15 follow
Any Recommendations For Software For Drawing Plasmid Maps?
visualization
software
updated 2.9 years ago by
Ram
45k • written 13.8 years ago by
Michael Petronio
▴ 70
20
votes
15
replies
70k
views
12 follow
Python Script To Translate Rna Sequences To Protein Sequences
python
biopython
translation
updated 11.5 years ago by
viv_bio
▴ 50 • written 14.4 years ago by
Studentguy
▴ 70
2
votes
1
reply
70k
views
Tutorial:
Docker denied: requested access to the resource is denied
docker
updated 2.7 years ago by
LauferVA
4.5k • written 2.7 years ago by
kodwings
▴ 20
328
votes
54
replies
70k
views
45 follow
What Tools/Libraries Do You Use To Visualize Genomic Feature Data?
genome
visualization
updated 16 months ago by
Ram
45k • written 15.0 years ago by
brentp
24k
72
votes
22
replies
70k
views
16 follow
How To Convert Gencode Gtf Into Bed Format ?
gtf
bed
updated 2.3 years ago by
leshaker
• 0 • written 12.4 years ago by
biorepine
★ 1.5k
69
votes
12
replies
69k
views
7 follow
Recommended cutoff for FDR - 0.05 or 0.1
RNA-Seq
R
updated 4.0 years ago by
George
• 0 • written 8.6 years ago by
aggregatibacter
▴ 200
24
votes
23
replies
69k
views
7 follow
Multiple Histograms In One Plot
r
updated 3.3 years ago by
Ram
45k • written 11.7 years ago by
Assa Yeroslaviz
★ 1.9k
1
vote
6
replies
69k
views
Error in read.table(file = file, header = header, sep = sep, quote = quote, : duplicate 'row.names' are not allowed
R
updated 2.0 years ago by
Ram
45k • written 8.2 years ago by
IOM
• 0
51
votes
10
replies
68k
views
7 follow
RNA-seq: Explain STAR quantMode geneCounts values
RNA-Seq
STAR
Differential expression
updated 7.0 years ago by
Tao
▴ 540 • written 8.4 years ago by
williantafsilva
▴ 400
75
votes
13
replies
68k
views
10 follow
Tutorial:
Machine Learning For Prediction of Relapse in Cancer - Part 2 - Building A Random Forest Classifier
classification
r
cancer
randomForest
machine-learning
updated 7 months ago by
Obi Griffith
20k • written 11.3 years ago by
Nicholas Spies
★ 1.2k
103
votes
6
replies
68k
views
6 follow
Insert Size And Fragment Size ?
3.4 years ago by
Nicolas Rosewick
11k
52
votes
11
replies
68k
views
7 follow
In Seurat, How Do nCount_RNA Differ from nFeature_RNA?
seurat
single-cell
updated 3.4 years ago by
jared.andrews07
★ 18k • written 5.4 years ago by
bioinformatics2020
▴ 830
1
vote
2
replies
67k
views
"SyntaxError: unexpected EOF while parsing " IN PYTHON 3.7
PYTHON
updated 4.0 years ago by
Istvan Albert
102k • written 4.9 years ago by
geethus2009
• 0
41
votes
20
replies
67k
views
8 follow
How to convert to .SRA files to .FQ (FASTQ)
fastq
FASTQ
sra
RNA-Seq
SRAA
updated 3.1 years ago by
aimanbarki
▴ 20 • written 10.6 years ago by
Veli Kaan Aydin
▴ 50
53
votes
8
replies
67k
views
8 follow
What Is A Good Threshold For Log2 Fold Change?
microarray
gene
updated 10.0 years ago by
Biostar
20 • written 14.0 years ago by
Some
▴ 90
50
votes
9
replies
67k
views
FindConservedMarkers vs FindMarkers vs FindAllMarkers Seurat
next-gen
RNA-Seq
single-cell
R
updated 19 months ago by
camillab.
▴ 160 • written 5.3 years ago by
Payal
▴ 160
39
votes
5
replies
66k
views
Idenity, e value or bitscore ?
blast
annotation
updated 5.8 years ago by
alslonik
▴ 320 • written 8.9 years ago by
Leo
▴ 70
162
votes
24
replies
66k
views
19 follow
Recommended Tools For Alternative Splicing Detection From Rna-Seq Data
alternative-splicing
splicing
rna-seq
updated 21 months ago by
Ram
45k • written 12.0 years ago by
Nicolas Rosewick
11k
80
votes
24
replies
66k
views
16 follow
How To Sort Bed Format File
bed
updated 2.4 years ago by
Pierre Lindenbaum
165k • written 12.1 years ago by
lyz10302012
▴ 470
54
votes
20
replies
66k
views
14 follow
Bam Header Edit
bam
updated 2.6 years ago by
Ram
45k • written 12.8 years ago by
Ashutosh Pandey
12k
36
votes
14
replies
66k
views
9 follow
What Is The Difference Between Hg18 And Hg19?
genome
hg
hg
updated 13.1 years ago by
Jorge Amigo
14k • written 13.1 years ago by
Sara
▴ 170
38
votes
41
replies
66k
views
9 follow
Volcano Plot from DEseq2
R
written 7.4 years ago by
1769mkc
★ 1.2k
93
votes
25
replies
66k
views
18 follow
Best Practices/Softwares To Calculate Ka/Ks Ratio
kaks
selection
software
updated 2.5 years ago by
Michael
55k • written 14.1 years ago by
Jarretinha
3.5k
164
votes
71
replies
65k
views
36 follow
How To Efficiently Parse A Huge Fastq File?
fastq
next-gen-sequencing
updated 8 months ago by
jena
▴ 320 • written 13.7 years ago by
Panos
★ 1.8k
52
votes
8
replies
65k
views
7 follow
Subsampling Bam File With Samtools
bam
samtools
updated 14 months ago by
giulia.trauzzi
▴ 30 • written 11.7 years ago by
madbessoul
▴ 250
0
votes
6
replies
65k
views
Error in dimnames(x) <- dn : length of 'dimnames' [1] not equal to array extent
R
heatmap
error
updated 3.8 years ago by
Abdul Aziz
• 0 • written 6.0 years ago by
luzglongoria
▴ 50
149
votes
35
replies
65k
views
33 follow
Tutorial:
Tools For Metagenomic Data Analysis
metagenomics
next-gen
updated 2.1 years ago by
Ram
45k • written 12.3 years ago by
vijay
★ 1.6k
19
votes
2
replies
65k
views
Keeping pheatmap colour range the same for different data sets
R
RNA-Seq
pheatmap
updated 8.8 years ago by
Selenocysteine
▴ 620 • written 8.8 years ago by
as9309
▴ 60
102
votes
30
replies
64k
views
25 follow
Tools To Find Gene Ontology Term Enrichment
gene
enrichment
updated 16 months ago by
Ram
45k • written 15.0 years ago by
Biostar User
★ 1.0k
40
votes
7
replies
64k
views
Clustering Data (Rna-Seq) Using R To Produce A Heatmap
r
rna
heatmap
clustering
gene
updated 2.7 years ago by
Ram
45k • written 13.4 years ago by
Kanne
▴ 450
50
votes
13
replies
64k
views
13 follow
Calculating TPM from featureCounts output
RNA-Seq
updated 17 months ago by
camillab.
▴ 160 • written 9.2 years ago by
nash.claire
▴ 510
93
votes
19
replies
63k
views
18 follow
What Is A Good Phylogenetic Tree Display Program For Large Data Sets?
phylogenetics-tree
updated 21 months ago by
Ram
45k • written 14.5 years ago by
Niek De Klein
★ 2.6k
90
votes
44
replies
63k
views
28 follow
Tool to generate proportional Venn Diagrams?
visualization
updated 2.9 years ago by
Ram
45k • written 13.9 years ago by
Ryan D
★ 3.4k
27
votes
22
replies
63k
views
22 follow
Public Electronic Health Records Database
database
written 11.9 years ago by
Abhi
★ 1.6k
25
votes
5
replies
62k
views
7 follow
Rpkm Calculation For Genes
rpkm
rna-seq
updated 12.4 years ago by
JC
13k • written 12.4 years ago by
siddharth.sethi5
▴ 290
61
votes
23
replies
62k
views
15 follow
How Can I Know The Length Of Mapped Reads From Bam File?
bam
mapping
updated 16 months ago by
Lluís R.
★ 1.2k • written 12.1 years ago by
Jordan
★ 1.3k
87
votes
2
replies
62k
views
6 follow
Tutorial:
How To Ask Good Questions On Technical And Scientific Forums
how-to
updated 2.1 years ago by
Ram
45k • written 11.7 years ago by
Eric Normandeau
11k
52
votes
15
replies
61k
views
11 follow
How to extract specific chromosome from vcf file
vcf
updated 2.5 years ago by
beausoleilmo
▴ 600 • written 8.7 years ago by
MAPK
★ 2.1k
30
votes
22
replies
61k
views
11 follow
How To Convert List Of Entrez Ids Into Gene Name
r
genomics
entrez
updated 20 months ago by
cwang3444
• 0 • written 11.9 years ago by
grosy
▴ 100
64
votes
25
replies
61k
views
22 follow
Download All The Bacterial Genomes From Ncbi
ncbi
updated 9 months ago by
GenoMax
150k • written 12.2 years ago by
rehma.ar
▴ 290
2
votes
10
replies
60k
views
R: remove rows by a list of rownames
R
updated 2.9 years ago by
Ram
45k • written 10.1 years ago by
silvi_free88
▴ 50
50
votes
33
replies
60k
views
10 follow
I would like to add gene names to a volcano plot obtained from DEseq2
RNA-Seq
DEseq2
R
updated 6.9 years ago by
Kevin Blighe
89k • written 8.6 years ago by
ta_awwad
▴ 350
88
votes
12
replies
60k
views
9 follow
What are chimeric reads?
sequence
updated 3.1 years ago by
Ram
45k • written 10.4 years ago by
zhangz.cs
▴ 300
17
votes
6
replies
60k
views
Turn Off Blast Search On Reverse Complement Strand In Blastn
blast
sequence
updated 17 months ago by
Ram
45k • written 15.1 years ago by
Zhaorong
★ 1.4k
80
votes
27
replies
60k
views
20 follow
How To Write Data In A Granges Object To A Bed File.
bed
updated 2.5 years ago by
Johan Zicola
▴ 80 • written 11.2 years ago by
Ram
▴ 190
12
votes
1
reply
59k
views
Interpreting GSEA enrichment plots/results
RNA-Seq
gsea
updated 5.6 years ago by
restonpiston
▴ 70 • written 6.0 years ago by
vinayjrao
▴ 260
98
votes
12
replies
59k
views
6 follow
Ensembl-Ids Vs. Entrez-Ids
ensembl
entrez
gene
updated 4.0 years ago by
hagenaue
▴ 10 • written 13.2 years ago by
Untom
▴ 420
120,740 results • Page
3 of 2415
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Answer: Any Tools to calculate specific gene coverage from BAM file?
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Answer: Seeking Advice on Handling Multiple Datasets for Differential Analysis in Transc
Answer: Seeking Advice on Handling Multiple Datasets for Differential Analysis in Transc
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Answer: Guidance Needed: Best Practices for Handling Technical Replicates in RNA-seq Ana
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87k
Merge the fastq files immediately. Sequencing the same pool of cDNA is commonly not considered a source of batch effect. That was asked man…
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I work on viruses/bacteria, completely different field.
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Hello! I’m currently delving into the realm of transcriptome meta-analysis and have encountered some issues that have been causing me quite…
Comment: Seeking Advice on Handling Multiple Datasets for Differential Analysis in Transc
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Thank you for your reply and suggestion. The term "non-raw" data means that it is not the counts data. For example, some expression profile…
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I used non-redundant protein sequence (nr) in blastp. Galaxy only allowed tick options and upload files, I didn't use hints and specify pre…
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My vote in these situations is generally `rlog` or `vst`. They implement both library size normalisation and variance stabilisation. I woul…
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Hi, I am having this same problem as OP right now. When I do the echo $PATH command, it returns: /Users/chachonos/sratoolkit.3.0.0-ma…
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genanalyzer24
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You're right, thanks for catching that. Here it is: https://genanalyzer.pythonanywhere.com/. Let me know what you think :)
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Thanks for all the inputs.
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150k
Since you have publications associated with this data (based on your last thread and a question before that) don't try to do this analysis …
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by
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Thank you so much, you were really helpful! Do you think it is possible to do some kind of analysis to evaluate positive selection or mainl…
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I doubt your RNA quality is the issue. It's not likely that poor quality would cause reads to align to the wrong gene. Its far more likely …
Comment: Is there too little variation to detect meaningful gene changes?
by
Megan
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The RIN values for these samples ranged around 6.0-7.0, which I think would suggest RNA degradation. From what I am aware of, I don't think…
Answer: Recommendations for Reference-guided de novo assembly assembly approaches or pip
by
shelkmike
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You can do a de novo assembly and then scaffold the contigs using a reference by RagTag (https://github.com/malonge/RagTag). However, I per…
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