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120,890 results • Page
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6
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replies
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Alternatives to UCSC genome browser for obtaining gene coordinates
browser
ucsc
updated 10 minutes ago by
LauferVA
4.6k • written 2 days ago by
shpak.max
▴ 60
0
votes
8
replies
169
views
Tool:
Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
ai
biology
grants
nih
litreview
updated 5 hours ago by
GenoMax
150k • written 6 hours ago by
Will
• 0
0
votes
0
replies
45
views
Job:
Postdoctoral Position in Computational Protein Design and Molecular Modelling
opportunity
postdoc
5 hours ago by
Sophie
• 0
0
votes
1
reply
80
views
Modify read groups in BAM file
samtools
BAM
picard
DRAGEN
updated 9 hours ago by
Istvan Albert
102k • written 9 hours ago by
Alex
• 0
0
votes
0
replies
57
views
How to put distinct colors to connection bridges in the Sankey plot ?
R
Python
Sankey
12 hours ago by
ohtang7
▴ 40
835
votes
169
replies
172k
views
110 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 6 months ago by
Biostar
3.4k • written 8.3 years ago by
Istvan Albert
102k
0
votes
0
replies
58
views
PCA comparison of cell line vs tumors
RNAseq
Sequencing
PCA
Normalization
12 hours ago by
karlensberg
• 0
0
votes
9
replies
309
views
Find the reads which correspond to DP of vcf
bam
variant
vcf
sam2tsv
updated 13 hours ago by
Pierre Lindenbaum
165k • written 1 day ago by
totoroGirl
• 0
1
vote
1
reply
125
views
cibersortx error - $ operator is invalid for atomic vectors
cibersortx
13 hours ago by
Franck
• 0
0
votes
0
replies
51
views
Need help defining a threshold
DAVID
Genes
GO
13 hours ago by
Ana
• 0
2
votes
8
replies
322
views
Larger genome size than expected-please help
genome
nanopore
size
minimap2
updated 12 hours ago by
Istvan Albert
102k • written 1 day ago by
alexandrakortsi
• 0
2
votes
4
replies
167
views
PCA plots in ATAC-seq replicates: Is it okay to use vst transformed data for visualization?
ATAC-seq
diffbind
updated 18 hours ago by
ATpoint
87k • written 18 hours ago by
maplewj
▴ 20
0
votes
1
reply
288
views
Question about `vg construct`
vg
updated 21 hours ago by
Jouni Sirén
▴ 630 • written 5 days ago by
zhengluo
• 0
0
votes
0
replies
76
views
How can I use mcmcglmm to calculate whether two traits are correlated?
glmm
statistics
evolution
1 day ago by
雨
▴ 20
0
votes
2
replies
264
views
DiffBind normalization error: invalid argument type (list) - cannot make it work, everything seems correct
normalization
deseq2
chipseq
diffbind
12 hours ago by
buffealo
▴ 130
1
vote
8
replies
1.5k
views
6 follow
FastQC on nanopore data: high proportion of polyA and polyG. Why ?
fastQC
polyG
ONT
nanopore
polyA
updated 19 hours ago by
lieven.sterck
15k • written 12 months ago by
Matt
• 0
78
votes
31
replies
31k
views
18 follow
Tutorial:
How To Separate Illumina Based Strand Specific Rna-Seq Alignments By Strand
RNA-seq
15 hours ago by
Istvan Albert
102k
1
vote
4
replies
265
views
News:
Wolfram tech for bio data analysis
plots
statistics
databases
ai
1 day ago by
dk7258859
• 0
4
votes
5
replies
217
views
Facing issue with output of nextflow pipeline
output
nextflow
fastqc
issue
updated 1 day ago by
colindaven
7.3k • written 1 day ago by
harsh
▴ 20
0
votes
1
reply
164
views
MULTIQC for miRNAseq data
multiqc
updated 1 day ago by
i.sudbery
21k • written 2 days ago by
Alana Conceição Maia Lessa
• 0
0
votes
1
reply
169
views
How to improve the mapping rate of vg giraffe
vg
updated 1 day ago by
colindaven
7.3k • written 2 days ago by
gulin
• 0
0
votes
5
replies
229
views
miRNA-seq normalization
miRDeep2
normalization
RNA-seq
miRNA-seq
miRNA
updated 1 day ago by
GenoMax
150k • written 1 day ago by
paulanavarrete116
• 0
2
votes
2
replies
243
views
Issues with vg surject into paths
vg
updated 1 day ago by
GenoMax
150k • written 2 days ago by
Rugare
• 0
0
votes
0
replies
131
views
Missing short indels from vcf
bcftools
shortindels
mpileup
2 days ago by
kbranger
• 0
8
votes
12
replies
386
views
Batch correction RNA-seq analysis
rna-seq
ComBat-seq
batch
correction
updated 1 day ago by
LauferVA
4.6k • written 2 days ago by
ka132
▴ 10
0
votes
3
replies
186
views
bbduk.sh trimming to BAM output file
bbduk.sh
updated 2 days ago by
GenoMax
150k • written 2 days ago by
bge
• 0
0
votes
2
replies
188
views
DEG analysys using pseudobulk from single cell RNA-seq
DEG
scRNA-seq
1 day ago by
Diego
▴ 110
1
vote
1
reply
133
views
Microarray platform probrID to Circ-ID problem
CircRNA
microarray
updated 2 days ago by
GenoMax
150k • written 2 days ago by
ParastooA
▴ 20
0
votes
4
replies
223
views
Checking sex of a sample with sequencing data
ATAC-seq
19 hours ago by
xqyn
▴ 30
1
vote
5
replies
417
views
Depth in Cram file does not match depth in VCF file
IGV
of
Depth
SNV
coverage
updated 2 days ago by
Istvan Albert
102k • written 4 days ago by
shu8
• 0
1
vote
1
reply
155
views
Tools for clustering genes rather than samples for bulk RNA-seq
time
Bulk
RNA-seq
course
clustering
updated 2 days ago by
i.sudbery
21k • written 2 days ago by
ATS
• 0
2
votes
2
replies
311
views
what database should I use for de novo genome in AUGUSTUS
genome
AUGUSTUS
galaxy
annotation
updated 19 hours ago by
lieven.sterck
15k • written 5 days ago by
Jl
• 0
1
vote
3
replies
204
views
Is there a tool to obtain GO terms for thousands of genes at once?
permutations
Genes
updated 2 days ago by
GenoMax
150k • written 2 days ago by
Ana
• 0
0
votes
1
reply
161
views
cant make the correct matrix
logfc
csv
updated 2 days ago by
lieven.sterck
15k • written 2 days ago by
Naila
• 0
1
vote
4
replies
223
views
FIxing Gene Models in Funannotate
genomics
funannotate
fungus
annotation
2 days ago by
SomeOne
▴ 170
1
vote
7
replies
302
views
How to Make Cell Order identical Between Two Seurat Objects in R?
R
seurat
scRNA-seq
updated 2 days ago by
yura.grabovska
▴ 750 • written 2 days ago by
zhang616123
• 0
0
votes
3
replies
221
views
Assign different color in same section of Chord diagram in R
Chart
R
Diagram
Plot
Chord
updated 1 day ago by
Bastien Hervé
6.2k • written 2 days ago by
Jonathan Yoou
▴ 70
0
votes
0
replies
129
views
News:
Live Online course: Introduction to Python, April, 2025
python
programming
course
2 days ago by
soledad.esteban
• 0
0
votes
4
replies
224
views
Niormalization process in creating heatmap
Z
heatmap
score
Normalization
updated 2 days ago by
ATpoint
87k • written 2 days ago by
ZuelTech
• 0
1
vote
14
replies
596
views
Lacking exons in gtf file of a virus' genome
gtf
exon
Mapping
Hazara
VirusGenome
updated 2 days ago by
colindaven
7.3k • written 3 days ago by
ZuelTech
• 0
1
vote
4
replies
1.3k
views
Should I process two complete sets of 10x single-cell multiomics sequencing files from one donor together or separately?
10x_multiome
ENCODE
cellranger_arc
updated 3 days ago by
swbarnes2
14k • written 5 days ago by
Wu-Sheng Zhang
• 0
1
vote
4
replies
294
views
Count matrices plotting
count
matrix
scanpy
2 days ago by
NIkita
• 0
3
votes
8
replies
337
views
Filter snRNA-seq .fastq files based on barcodes
snRNA-seq
scRNA-seq
FASTQ
bbmap
updated 2 days ago by
GenoMax
150k • written 3 days ago by
connorjfausto
▴ 30
0
votes
1
reply
209
views
Defining Sex Chromosomes in PLINK for a Camel Genome
plink
vcf
updated 3 days ago by
chrchang523
11k • written 3 days ago by
Smilesky
• 0
0
votes
0
replies
136
views
Why is the IC50 of the low-risk group always lower than that of the high-risk group?
OncoPredict
3 days ago by
nuorain
▴ 40
0
votes
0
replies
151
views
News:
Introduction to Epigenomics course
Epigenomics
RNA-seq
ATAC-seq
Chip-seq
HI-C
3 days ago by
Physalia-courses
★ 2.6k
0
votes
2
replies
228
views
Remove batch effect RnaSeq (RUVg)
ruvg
batch
rnaseq
remove
2 days ago by
aLex97
• 0
0
votes
0
replies
154
views
Annotation of CpG, DMRs and DMPs with MethylKit and Genomation in R
dmp
methylkit
dmr
CpG
3 days ago by
egascon
▴ 60
1
vote
0
replies
244
views
Tool:
A rust binding for pairwise/multiple sequence aligner: bsalign-rs
bsalign
alignment
1 day ago by
dwpeng
▴ 120
0
votes
2
replies
353
views
Perform DEGs with pyDESeq2 in CCLE Melanoma Data But Contains Negative Values
DEG
CCLE
Melanoma
pyDESeq2
5 days ago by
mete.han.celebi
• 0
120,890 results • Page
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Answer: Alternatives to UCSC genome browser for obtaining gene coordinates
Alternatives to UCSC genome browser for obtaining gene coordinates
Comment: How To Separate Illumina Based Strand Specific Rna-Seq Alignments By Strand
Comment: biomaRt error for different R version
Answer: Alternatives to UCSC genome browser for obtaining gene coordinates
Answer: Alternatives to UCSC genome browser for obtaining gene coordinates
Answer: Alternatives to UCSC genome browser for obtaining gene coordinates
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Recent Replies
Answer: Alternatives to UCSC genome browser for obtaining gene coordinates
by
LauferVA
4.6k
@shpakmax , First, bravo for specifying both a reference build (hg19) and a standardized gene identifier system (HUGO gene names). As @g…
Comment: Association Analysis with Plink error
by
sivive87
• 0
Thank you so much for this insight! I have been staring at my phenotype data for hours, unaware of what is happening. I initially worked wi…
Comment: Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
by
GenoMax
150k
@jaredandrews07 if you are copy pasting this from some source, it may be best to provide a direct link. The text appears to have references…
Comment: Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
by
jared.andrews07
★ 18k
The references contain some non-ASCII character that it won't let me post. I didn't actually think about the question at all because why b…
Comment: Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
by
GenoMax
150k
For some reason Biostars SPAM bot is marking your posts as spam. I have gone ahead and opened this back up.
Answer: Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
by
jared.andrews07
★ 18k
**AI's Impact on Human Creativity and Innovation: A Critical Review** **Abstract** Emerging evidence from peer-reviewed studies sugge…
Comment: Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
by
Will
• 0
The expected input can be any materials that reflect your project: past proposals, publications, PDFs, or notes you want included. We also …
Comment: Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
by
GenoMax
150k
What is the expected input for this tool? RFA announcement or an outline of what the project is about and your aims? If two or more people …
Comment: Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
by
Will
• 0
There's definitely been an overwhelming wave of low-effort AI content lately. That’s not what we’re aiming for. The goal isn’t to replace …
Comment: Introducing Grantease: Go From RFA to First Draft Grant Proposal in 15 Minutes
by
jared.andrews07
★ 18k
Nothing quite like watching the decline of creativity in real time. There's already so much AI-generated slop published and submitted, do w…
Answer: Modify read groups in BAM file
by
Istvan Albert
102k
I agree that the syntax and efficiency of read group handling in these tools are surprisingly convoluted. It would take me many tries to …
Comment: DiffBind normalization error: invalid argument type (list) - cannot make it work
by
buffealo
▴ 130
Thank you so much. Which metadata format should I proceed with, you think?
Comment: Larger genome size than expected-please help
by
Istvan Albert
102k
The critical thing to remember is that there will be information cannot be "proven" with your data because the read length imposes inherent…
Comment: Larger genome size than expected-please help
by
GenoMax
150k
There is nothing to prove per se. If you have multiple long reads in your data (advantage of nanopore over other short reads) that actually…
Answer: Alternatives to UCSC genome browser for obtaining gene coordinates
by
Maximilian Haeussler
★ 1.7k
Some people call what you want the "canonical" or "best" transcript. It's all documented here in UCSC's FAQ: https://genome.ucsc.edu/FAQ/FA…
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