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12,049 results • Page
2 of 241
Sort: replies
Rank
Views
Votes
Replies
11
votes
31
replies
15k
views
6 follow
How to concatenate multiple fasta file
sequence
genome
updated 11 months ago by
doggie
• 0 • written 5.8 years ago by
fec2
▴ 50
147
votes
31
replies
138k
views
26 follow
Useful Bash Commands To Handle Fasta Files
command-line
fasta
bash
updated 10 months ago by
Ram
44k • written 12.3 years ago by
Anima Mundi
★ 2.9k
105
votes
31
replies
95k
views
18 follow
Best Way To Merge A Many Thousand Small Bam Files Into One Big Bam File?
bam
picard
samtools
merge
updated 5 months ago by
mmfansler
▴ 450 • written 12.9 years ago by
2184687-1231-83-
★ 5.1k
50
votes
30
replies
12k
views
13 follow
Tutorial:
How to Use Biostars, Part-I: Questions, Answers, Comments and Replies
documentation
meta
how-to
updated 8 weeks ago by
Istvan Albert
100k • written 8.2 years ago by
Ram
44k
58
votes
30
replies
11k
views
13 follow
Content Management Systems For Bioinformatics Websites
web
updated 6 months ago by
Ram
44k • written 14.1 years ago by
Khader Shameer
18k
18
votes
30
replies
10k
views
6 follow
Tool:
Introducing FilterByTile: Remove Low-Quality Reads Without Adding Bias
Illumina
BBMap
filterbytile
updated 11 months ago by
Ram
44k • written 7.4 years ago by
Brian Bushnell
20k
102
votes
30
replies
62k
views
25 follow
Tools To Find Gene Ontology Term Enrichment
gene
enrichment
updated 7 months ago by
Ram
44k • written 14.2 years ago by
Biostar User
★ 1.0k
31
votes
30
replies
15k
views
6 follow
Tool:
BioVinci: user-friendly software to make plotting easy - PCA, 3D scatter plot, venn diagram, you name it.
gene
RNA-Seq
Venn-diagram
PCA
updated 11 months ago by
Ram
44k • written 6.0 years ago by
Jennifer Pham
▴ 450
124
votes
29
replies
7.4k
views
18 follow
What License Do You Use When You Release Code And Data?
software
general
subjective
updated 6 months ago by
Ram
44k • written 14.2 years ago by
Simon Cockell
7.4k
16
votes
29
replies
1.9k
views
Gene labels problem in enhanced volcano
R
ggplot2
enhancedvolcano
updated 3 months ago by
Mensur Dlakic
★ 27k • written 3 months ago by
anasjamshed
▴ 120
84
votes
29
replies
32k
views
20 follow
Tutorial:
How to create a mutation landscape (waterfall) plot with GenVisR
BioConductor
GenVisR
Graphics
R
updated 10 months ago by
amziepickles
• 0 • written 8.2 years ago by
Obi Griffith
20k
4
votes
29
replies
11k
views
6 follow
WGCNA soft thresholding problem
WGCNA
RNA-Seq
soft thresholding
data normalization
updated 3 months ago by
foejvs546
▴ 10 • written 5.5 years ago by
catagui
▴ 40
70
votes
29
replies
15k
views
13 follow
Tutorial:
Generating consensus sequence from bam file
fasta
consensus
bam
updated 10 weeks ago by
jkbonfield
★ 1.2k • written 5.2 years ago by
finswimmer
16k
20
votes
29
replies
2.6k
views
6 follow
Using bcftools to find unique alt homozygous sites
bcftools
updated 7 months ago by
Pierre Lindenbaum
162k • written 7 months ago by
Axzd
▴ 70
39
votes
28
replies
11k
views
10 follow
How Much Does It Cost To Align A Flowcell In The Cloud?
cloud
3 months ago by
Jeremy Leipzig
22k
43
votes
28
replies
5.7k
views
13 follow
Post Your Prefered Bioinformatics Short Code
code
updated 6 months ago by
Ram
44k • written 14.1 years ago by
Eric Normandeau
11k
29
votes
28
replies
35k
views
11 follow
Split Fastq Files Into Chunks Of 1M Reads
split
fastq
updated 22 days ago by
thomas.heigl.ibk
• 0 • written 12.8 years ago by
Bioscientist
★ 1.7k
197
votes
27
replies
35k
views
20 follow
Forum:
Bioinformatics Cartoon
bioinformatics
updated 10 months ago by
Ram
44k • written 12.4 years ago by
Maxime Lamontagne
★ 2.3k
73
votes
27
replies
28k
views
16 follow
Tutorial:
How To Separate Illumina Based Strand Specific Rna-Seq Alignments By Strand
RNA-seq
updated 5 months ago by
snardeli
• 0 • written 10.3 years ago by
Istvan Albert
100k
26
votes
27
replies
2.2k
views
10 follow
Forum:
Determining computer time required
computer
hpc
time
updated 4 months ago by
dsull
★ 6.1k • written 4 months ago by
Rozita
▴ 40
82
votes
27
replies
21k
views
12 follow
ATAC-seq sample normalization
ChIP-Seq
atac-seq
normalization
updated 7 weeks ago by
sgv
• 0 • written 4.4 years ago by
Flo
▴ 250
27
votes
27
replies
10k
views
6 follow
How To Detect And Query Poly-Allelic Snps?
snp
allele
biomart
dbsnp
updated 6 months ago by
Ram
44k • written 14.2 years ago by
Michael
54k
28
votes
27
replies
15k
views
9 follow
Extracting A Subset Of Sequences From A Fastq File (Biopython Speed)
biopython
python
fastq
next-gen-sequencing
updated 6 months ago by
Ram
44k • written 14.1 years ago by
Darked89
4.6k
77
votes
26
replies
121k
views
15 follow
How to count fastq reads
sequence
next-gen
fastq
reads
updated 6 months ago by
cschu181
★ 2.8k • written 9.1 years ago by
Chenglin
▴ 260
81
votes
26
replies
13k
views
17 follow
Appropriate Podcasts For A Bioinformatician?
subjective
updated 7 months ago by
Ram
44k • written 14.2 years ago by
User 59
13k
24
votes
26
replies
3.7k
views
Tool:
ClinCNV: CNV detection from short reads
variant-calling
cna
cnv
updated 11 months ago by
Ram
44k • written 4.6 years ago by
German.M.Demidov
★ 2.9k
96
votes
26
replies
31k
views
15 follow
What Methods Do You Use For In/Del/Snp Calling?
short-read-aligner
snp
sequencing
updated 6 months ago by
Ram
44k • written 14.1 years ago by
Pierre Lindenbaum
162k
3
votes
26
replies
2.1k
views
6 follow
STAR Genome index Error
STAR
updated 7 months ago by
Ram
44k • written 7 months ago by
Prasanna
• 0
20
votes
26
replies
3.3k
views
Is there a command line tool that can take an alignment fasta and input and outputs an image?
alignment
fasta
image
updated 9 months ago by
Joe
21k • written 4.9 years ago by
Joel Wallenius
▴ 210
38
votes
26
replies
19k
views
16 follow
GO analysis: DAVID vs GREAT vs GOrilla
RNA-Seq
ChIP-Seq
GO
gene ontology
written 8.3 years ago by
biostart
▴ 370
105
votes
26
replies
43k
views
23 follow
How To Create Mutation Diagram In R Or In Any Tools?
mutation
domain
r
updated 8 months ago by
zx8754
11k • written 11.4 years ago by
henryvuong
▴ 810
47
votes
26
replies
4.2k
views
11 follow
Blog:
Evolution of Biostars
meta
Biostars
updated 9 months ago by
aldhairmedico
▴ 70 • written 5.2 years ago by
venu
7.1k
21
votes
26
replies
9.8k
views
11 follow
Tutorial:
Create de novo repeat library
de-novo
repeat
annotation
updated 10 weeks ago by
Yao
▴ 30 • written 4.5 years ago by
Juke34
8.6k
7
votes
25
replies
11k
views
6 follow
Tool:
MIGEC: towards error-free profiling of immune repertoires
sequencing-error
tcr
antibody
molecular-barcode
updated 11 months ago by
Ram
44k • written 10.1 years ago by
mikhail.shugay
3.5k
69
votes
25
replies
7.1k
views
16 follow
How Do You Explain What You Do To The Guy On The Street Or Your Mum?
general
updated 6 months ago by
Ram
44k • written 14.2 years ago by
Dave Gerrard
▴ 190
51
votes
25
replies
6.9k
views
10 follow
What Is Your Experience With Bioinformatics Webservices?
web-service
subjective
updated 6 months ago by
Ram
44k • written 14.2 years ago by
Michael
54k
36
votes
25
replies
33k
views
15 follow
Downsampling dataset with more than 60 million reads
next-gen
RNA-Seq
updated 5 months ago by
asalimih
▴ 60 • written 9.8 years ago by
mike
▴ 90
18
votes
25
replies
15k
views
13 follow
Easy way to split VCF file by chromosome
sequence
TOPMED
chromosome
Imputation
SNP
updated 10 months ago by
Pierre Lindenbaum
162k • written 2.3 years ago by
ConvolutedGenome
▴ 30
13
votes
25
replies
4.4k
views
7 follow
VEP output has no gene names
alignment
sequencing
vep
updated 11 months ago by
barslmn
★ 2.2k • written 5.8 years ago by
Gene_MMP8
▴ 240
38
votes
25
replies
9.2k
views
13 follow
FASTA file of fixed length
sequence
fasta
updated 8 months ago by
Ram
44k • written 8.1 years ago by
waqasnayab
▴ 250
17
votes
25
replies
2.5k
views
Tool:
Platform for Bioinformatics Students, Scholars and Scientists
sequence
genome
updated 11 months ago by
Ram
44k • written 8.2 years ago by
support
▴ 50
60
votes
25
replies
5.9k
views
8 follow
Forum:
Am I crazy, or are most published RNA-seq studies vastly underpowered?
sample-size
statistical-power
RNA-Seq
updated 11 months ago by
Ram
44k • written 3.8 years ago by
telroyjatter
▴ 230
13
votes
25
replies
11k
views
9 follow
Tool:
Mitcr: A Software Tool For Analyzing T-Cell Receptor Sequencing Data
analysis
sequencing
ngs
updated 11 months ago by
Ram
44k • written 10.8 years ago by
mikhail.shugay
3.5k
60
votes
25
replies
22k
views
17 follow
Which Operating System Do You Prefer For Bioinformatics?
general
subjective
updated 7 months ago by
Ram
44k • written 14.3 years ago by
Giovanni M Dall'Olio
28k
6
votes
25
replies
39k
views
14 follow
CluserProfiler message "No gene can be mapped"
R
updated 11 months ago by
13554221497
• 0 • written 6.2 years ago by
ARich
▴ 130
68
votes
25
replies
16k
views
12 follow
Tool:
sra-explorer : find SRA and FastQ download URLs in a couple of clicks
fastq
SRA
updated 7 months ago by
GenoMax
142k • written 5.2 years ago by
Phil Ewels
★ 1.4k
88
votes
24
replies
24k
views
17 follow
Tutorial:
Gene Set Enrichment Analysis
microarray
enrichment
RNA-Seq
GSEA
updated 5 weeks ago by
Gordon
• 0 • written 3.6 years ago by
Hamid Ghaedi
3.2k
80
votes
24
replies
11k
views
18 follow
Which Bioinformatics Journals Do You Follow?
bioinformatics-journal
updated 6 months ago by
Ram
44k • written 14.1 years ago by
Giovanni M Dall'Olio
28k
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
65
votes
24
replies
17k
views
14 follow
Mapping Snps To Pathways
snp
genotyping
pathway
gene
enrichment
updated 7 months ago by
Ram
44k • written 14.2 years ago by
Pierre Lindenbaum
162k
12,049 results • Page
2 of 241
Recent Votes
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Answer: Why some SNP's allele frequencies in gnomAD are so different between v2 and v4?
Comment: Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
Why some SNP's allele frequencies in gnomAD are so different between v2 and v4?
Comment: Trouble with PLINK's logistic regression analysis and covariatesTrouble with PLI
Comment: Single cell analysis: Unable to subset cells in seurat object using desired nFea
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Recent Replies
Comment: Harmony integration group.by.var parameter
by
jared.andrews07
★ 17k
>I am not sure, but using "Sample_ID" might remove the differences between the conditions right ? More than likely, it'd at least impact t…
Comment: Harmony integration group.by.var parameter
by
Picasa
▴ 640
Thanks jared.andrews07 for your answer. So, you are suggesting to use only "Donor" in the integration? ```r RunHarmony(seu_obj, group.by.…
Comment: Single cell analysis: Unable to subset cells in seurat object using desired nFea
by
sc_analysis
• 0
I am not sure what should be the cut off. Looking at the vlnplot before subsetting i thought most of the cells are falling under 7500 nfeat…
Comment: How to calculate cell type frequency between two groups in single cell data
by
Sara
▴ 30
Thank you for your comment and sorry if this question might be so basic. How can I normalize the number of cells? If I am not wrong the i…
Comment: Bowtie 1.3.1 alignment error as array 21720,23124 produces sam bam files
by
Deepthi
• 0
I unzipped the fastq files to check whether reads are trimmed adapter or not. I have checked the quality control using fastqc they are go…
Comment: Mutation counts corrected by number of samples
by
Ram
44k
> I want to compare the number of mutations This comparison will give you literally no useful information.
Answer: How to scrape BioMart data from https://sorfs.ugent.be/ website
by
Pierre Lindenbaum
162k
something like: seq 1 100 4377380 | while read F ; do wget --no-check-certificate -O - "https://sorfs.ugent.be/database/micrope…
Answer: Harmony integration group.by.var parameter
by
jared.andrews07
★ 17k
The variability explained by the variables provided to `group.by.vars` is what Harmony will try to remove. Assuming you want to remove the …
Answer: Why some SNP's allele frequencies in gnomAD are so different between v2 and v4?
by
Jeremy Leipzig
22k
That SNP is in an HLA gene which has had a lot of attention and improvement over the years, ranging from kits to software to the reference …
Comment: Overlapping clusters for different biological conditions: Seurat, UMAP
by
Bastien Hervé
5.3k
What is the need of PBMC in your analysis ? If none, removing them from the beginning will allow your clusters to be more specific to your …
Answer: How to calculate cell type frequency between two groups in single cell data
by
Bastien Hervé
5.3k
I believe `sample_id` are your replicates in either `patient` or `control`. You can do it manually by normalizing the number of cells yo…
Answer: bfctools merge [E::hts_open_format] Failed to open file
by
j.f.akers
• 0
I think the program is trying to open a .vcf.gz.csi file rather than the actual data which is the .vcf.gz file, the csi file is not data, j…
Comment: LDhat lookup table
by
NÚRIA
• 0
Hi! Did you manage to fix this? I run convert successfully on 60 unphased diploid samples (1500bp), hence I used lktable available in LDh…
Comment: Trouble with PLINK's logistic regression analysis and covariatesTrouble with PLI
by
F110152169
• 0
It's Parkinson's disease. How do I get the right order?
Comment: How to scrape BioMart data from https://sorfs.ugent.be/ website
by
QX
• 0
yes but they did not reply
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