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122,013 results • Page
292 of 2441
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2
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Herald:
The Biostar Herald for Tuesday, February 28, 2023
herald
2.6 years ago by
Biostar
3.6k
0
votes
3
replies
1.0k
views
Hordeum vulgare transcripts addnotation
gene-annotation
hordeum-vulgare
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
martta95
▴ 10
3
votes
1
reply
1.2k
views
Which reference transcriptome/genome to use for mus musculus if I know the particular strain involved in the experiment?
mice
alignment
genome
transcriptome
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
e.r.zakiev
▴ 260
0
votes
1
reply
682
views
How to compare RNA expression correlation?
RNA-seq
cancer-cell-line
correlation
2.6 years ago by
Wang Cong
▴ 20
0
votes
3
replies
919
views
RNA-sequenceing mode for variant calling - PE or SE
rnaseq
variant-calling
updated 2.6 years ago by
ATpoint
89k • written 2.6 years ago by
Alex V. Gopanenko
• 0
0
votes
1
reply
673
views
Structure 2.3.4 project setup
Structure
updated 2.6 years ago by
Pierre Lindenbaum
166k • written 2.6 years ago by
Theresa
• 0
1
vote
4
replies
3.0k
views
Merge several input files to single output file snakemake
snakemake
updated 2.6 years ago by
raphael.B
▴ 540 • written 2.6 years ago by
samuel
▴ 260
1
vote
2
replies
946
views
Bar plots at genera level with absolute percentage difference between two groups in R
R
2.6 years ago by
hafiz.talhamalik
▴ 350
0
votes
1
reply
631
views
resequensing of the whole sample or sequencing to X k reads and merging files
RNA-seq
sequencing-depth
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
esimonova.me
▴ 30
0
votes
11
replies
2.5k
views
Can PHG handle spanning deletions in GVCF genotypes?
PHG
updated 2.6 years ago by
matt.shenton
• 0 • written 2.6 years ago by
matt.shenton
▴ 40
0
votes
2
replies
885
views
In addition to the chado, are there other biological database schemas?
schemas
database
2.6 years ago by
Marcos
▴ 10
0
votes
3
replies
3.9k
views
package ‘GenomeInfoDb’ could not be loaded
r
updated 2.6 years ago by
dthorbur
★ 3.1k • written 2.6 years ago by
exferin
• 0
1
vote
1
reply
881
views
mapping GO terms to classifications one rank down from the top- level GO categories
GO
Gene
Ontology
TopGO
Transcriptomics
updated 2.6 years ago by
geneontologyhelp
▴ 470 • written 2.6 years ago by
1215045934
▴ 80
0
votes
0
replies
652
views
Can I pool samples treated with different sgRNAs when testing for KO effects in RNA-seq analysis?
CRISPR
RNA-seq
DESeq2
2.6 years ago by
GLG
▴ 10
1
vote
8
replies
4.2k
views
cutadapt error problem
next-gen
cutadapt
updated 18 months ago by
Ram
45k • written 7.0 years ago by
amitpande74
▴ 20
0
votes
2
replies
868
views
Perform Plink association tests on a genetype file with one allele
plink
genetic-association-test
snps
2.6 years ago by
davidenoma
▴ 50
2
votes
5
replies
2.7k
views
How to add gene entry to gtf file?
single-cell
cellranger
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
bioinfo
▴ 160
0
votes
1
reply
1.4k
views
Job:
Senior Bioinformatics/Senior Data Science Analyst
bioinformatics-analyst
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
marisona.almazan
• 0
0
votes
0
replies
891
views
Job:
Bioinformatics Specialist/Data Science Specialist
NGS
data-analysis
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
marisona.almazan
• 0
0
votes
0
replies
953
views
Job:
Bioinformatics Analyst/Data Science Analyst
bioinformatics-analyst
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
marisona.almazan
• 0
3
votes
8
replies
1.8k
views
Mapping GO terms to description and vice versa
TopGO
GO
Transcriptomics
2.6 years ago by
1215045934
▴ 80
5
votes
24
replies
8.5k
views
7 follow
GRanges objects don't support [[, as.list(), lapply(), or unlist() at the moment
GRanges
updated 16 months ago by
Ram
45k • written 2.6 years ago by
Antonia
• 0
5
votes
7
replies
1.9k
views
help with ggplot
ggplot
2.6 years ago by
shallot
• 0
1
vote
1
reply
885
views
Bam to bedgraph
Bedtools
Bam
2.6 years ago by
prs
▴ 20
0
votes
0
replies
639
views
How to merge TransDecoder gff3 with BRAKER gff3?
BRAKER
Transdecoder
gene-annotation
gff3
genome
2.6 years ago by
BioinfoBee
• 0
7
votes
3
replies
8.1k
views
how to convert minimap2 generated sam file to bam
minimap2
sam
bam
samtools
updated 2.3 years ago by
Ram
45k • written 2.6 years ago by
mthm
▴ 80
5
votes
3
replies
1.3k
views
Journey from gene id to gene sequence
NCBI
Gene-id
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
Shweta
• 0
3
votes
2
replies
984
views
How to quantify the reads of each peak for ChIP-seq data?
ChIP-seq
DiffBind
2.6 years ago by
Dan
▴ 180
0
votes
1
reply
878
views
Issue with TBtools displaying black lines
TBtools
Heatmap
Circos
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
yh1126
• 0
10
votes
7
replies
16k
views
9 follow
bam file to .bedgraph
RNA-Seq
ChIP-Seq
Galaxy
R
genome
updated 2.6 years ago by
prs
▴ 20 • written 7.5 years ago by
praveenhcu131
• 0
0
votes
0
replies
551
views
Motif Matrix for RNA pol II & III TFs
motif
RNApol2
RNApol3
matrix
2.6 years ago by
Priyanka
▴ 10
2
votes
2
replies
2.0k
views
Comparing log2-fold changes to find elements with virtually the same log2-fold changes across different conditions
lo2foldchange
metabolomics
log2fc
log2
updated 2.6 years ago by
i.sudbery
22k • written 2.6 years ago by
robrob
• 0
1
vote
2
replies
1.1k
views
how to decide the if the IDR result is good or not
IDR
ATAC-seq
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
dew
▴ 10
0
votes
0
replies
487
views
Convertion of ENSEMBL id to gene symbol in the form of a vector.
symbol
gene
updated 2.6 years ago by
GenoMax
154k • written 2.6 years ago by
Julie
• 0
1
vote
3
replies
1.3k
views
DESeq2 code to perform DEG analysis
SEseq2
DEG
updated 2.6 years ago by
Ram
45k • written 2.6 years ago by
rupali
• 0
3
votes
2
replies
3.2k
views
Tutorial:
Continuing Education (Pipelines): Best blogs, Online Lectures, Workshops, etc..
conferences
Workshops
updated 2.4 years ago by
Ram
45k • written 8.4 years ago by
jnowacki
▴ 110
6
votes
1
reply
3.1k
views
Batch effect correction methods (Seurat v3, Harmony, fastMNN, Liger)
integration
Batch
seurat
fastMNN
Harmony
2.6 years ago by
re_raz
▴ 90
1
vote
1
reply
989
views
using Firebrowser to identify disease type
firebrowser
2.6 years ago by
dec986
▴ 380
0
votes
2
replies
946
views
Help with linkage analysis code for MORGAN v3.4 (PANGAEA)
dominant
linkage
recessive
parametric
2.6 years ago by
jockunzzi13
• 0
0
votes
2
replies
1.6k
views
How to parse a gene's location using biopython
python
biopython
EUtils
2.6 years ago by
Zoya
• 0
7
votes
4
replies
2.0k
views
snakemake wildcard in shell
snakemake
updated 2.6 years ago by
GenoMax
154k • written 2.6 years ago by
samuel
▴ 260
3
votes
2
replies
1.0k
views
How to find all of the new RNA splices from bulk RNA-seq data?
RNA-seq
RNA-splices
updated 2.6 years ago by
dthorbur
★ 3.1k • written 2.6 years ago by
Dan
▴ 180
0
votes
2
replies
1.1k
views
Analyze 2 or 3 different datasets from GEO2R
Microarray
GEO
2.6 years ago by
anasjamshed
▴ 140
0
votes
0
replies
814
views
Specify the order of the sets in VennDiagram R?
VennDiagram
R
2.6 years ago by
Lucy
▴ 170
0
votes
2
replies
1.2k
views
Move Cytoscape "CytoscapeConfiguration" directory
cytoscape
2.6 years ago by
Lucy
▴ 170
2
votes
10
replies
2.8k
views
(ERR): bowtie2-align exited with value 1
Bowtie2
alignment
updated 2.6 years ago by
ATpoint
89k • written 2.6 years ago by
StacyG
• 0
0
votes
1
reply
856
views
overlay ggplot graphs like those merging channels in imagej
ggplot
imagej
updated 2.6 years ago by
LChart
5.1k • written 2.6 years ago by
cwwong13
▴ 40
0
votes
4
replies
1.8k
views
SPOT_ID
SPOT_ID
2.6 years ago by
Kirstie Wong
• 0
1
vote
3
replies
1.3k
views
Question: Design matrix (DESeq2)
RNA-Seq
DESeq2
updated 2.6 years ago by
Shred
★ 1.6k • written 2.6 years ago by
ponganta
▴ 590
0
votes
2
replies
1.3k
views
To find amino acid substitution from fasta alignment
Aminoacid
proteomics
Perl
Genomics
R
2.6 years ago by
shwetamgr1
▴ 20
122,013 results • Page
292 of 2441
Recent Votes
Answer: Recommendations for 200 SNP markers genotyping
Comment: Reasonable number of SNPs in a bacterial genome.
The Biostar Handbook. A bioinformatics e-book for beginners.
Genome Assembly QC from BAM files
Answer: Scaling RNA-Seq data before clustering?
Answer: Scaling RNA-Seq data before clustering?
Online course: RNA sequencing data analysis using R and Bioconductor - 3–14 November
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Answer: GUI commercial software for 10x single cell gene expression analysis
by
firestar
★ 1.7k
An open-source option: [kana](https://www.kanaverse.org/kana/).
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine
by
Edward
• 0
Yes, we plan to make English the primary language of the Brave UI.
Comment: Reasonable number of SNPs in a bacterial genome.
by
michael.ante
★ 4.0k
If your bacterial species is a (human) pathogen, you might want to check outbreak analysis papers of that species. In general, you find t…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space?
by
lieven.sterck
16k
ok, missed that ... in any case that should not happen indeed. How did you determine that the files are not equal? I can indeed also see t…
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine
by
Ram
45k
Do you have a plan to make an English version of the UI?
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine
by
Edward
• 0
This can visualize the parameters of the generated workflow, software, and scripts, and manage the docker process of the script, software, …
Comment: Brave: Bioinformatics Reactive Analysis and Visualization Engine
by
ATpoint
89k
Can you summarize in one sentence what the use case is? Is this a workflow manager?
Comment: Pseudogene - scarce info
by
ATpoint
89k
This reminds me strongly on my "masters" courses (doesn't deserve that name tbf). "Here is some poorly-described project with little to no …
Answer: scVI vs Harmony, which is better for cell type based clustering in brain tissue?
by
ATpoint
89k
There is no "better" is my experience. It always depends on the dataset. Try both and integrate your biological knowledge to decide which m…
Comment: DESeq2 on metagenome KO counts
by
Aleksandra
▴ 190
I just wrote that I misunderstood your initial question.
Comment: DESeq2 on metagenome KO counts
by
Aleksandra
▴ 190
What exactly did I not get?
Comment: Interpreting genomic features distribution for CUT&RUN peaks
by
rfran010
★ 1.7k
If I understand correctly, you see increased signal at TSS sites compared to control (taller peaks in browser). However, 92% of the 450 siS…
Comment: combine VCF from diploid reference/haplotypes for the same sample
by
cmdcolin
★ 4.3k
this question is a little similar to your previous question (https://www.biostars.org/p/9614638/). just as added info, here is a tool calle…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space?
by
aj123
▴ 130
As mentioned above, I just got the raw fastq files from the ftp site listed.
Comment: DESeq2 on metagenome KO counts
by
ATpoint
89k
This statement makes zero sense in response to what I wrote.
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