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121,052 results • Page
1 of 2422
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Genomic Data Portal (GDC) download a given a link file
GDC
R
TCGA
TCGAbiolinks
maftools
just now by
bioinformagician
• 0
0
votes
2
replies
35
views
How to generate identiy score between aligned sequences with Mauve?
identity
score
alignment
mauve
updated 30 minutes ago by
GenoMax
151k • written 2 hours ago by
marongiu.luigi
▴ 740
5
votes
7
replies
2.3k
views
6 follow
Cluster annotation in single cell
Single-cell
updated 14 hours ago by
Shiyang
• 0 • written 19 months ago by
synat.keam
▴ 100
836
votes
167
replies
174k
views
111 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 14 days ago by
Biostar
3.5k • written 8.4 years ago by
Istvan Albert
102k
0
votes
1
reply
138
views
Finding matched RNA-seq and Ribo-seq datasets for Nicotiana benthamiana under the same condition
rna-seq
ribo-seq
translation-efficiency
dataset-search
nicotiana-benthamiana
updated 17 hours ago by
colindaven
7.4k • written 1 day ago by
Farshid
• 0
0
votes
4
replies
389
views
Limma model gives weird results
model
multivariate
Limma
updated 1 day ago by
SamGG
▴ 90 • written 3 days ago by
leranwangcs
▴ 150
3
votes
4
replies
389
views
How to download the entire C. elegans genome from WormBase into Excel with automated gene descriptions
Gene
Wormbase
Celegans
updated 23 hours ago by
GenoMax
151k • written 1 day ago by
bioinformatics_rk
▴ 10
0
votes
0
replies
116
views
Job:
Postdoctoral Research Fellow, multi-omics, Univ of Nebraska Medical Center, Omaha, NE, USA
microbiome
Postdoc
metagenome
transcriptome
metabolome
updated 1 day ago by
GenoMax
151k • written 1 day ago by
era
• 0
0
votes
0
replies
122
views
How to deal with the clusterProfiler analysis result?
clusterProfiler
updated 1 day ago by
GenoMax
151k • written 1 day ago by
Tundup
• 0
0
votes
0
replies
135
views
News:
Genome Bioinformatics Summer School: OMICSS-25
training
bioinformatics
school
1 day ago by
Lilit
• 0
1
vote
2
replies
207
views
Unable to find mitochondrial genes in latest rat genome(GRCr8)
seurat
genome
mitochondrialgenes
NCBI
Singlecell
1 day ago by
dxj294
• 0
0
votes
0
replies
106
views
Haplotype reference for ShapeIt (ShapeIt5)
Phasing
1 day ago by
evan.kransdorf
• 0
6
votes
6
replies
303
views
Pre-Made STAR Index for mm10 Mouse Genome
STAR
updated 17 hours ago by
colindaven
7.4k • written 1 day ago by
Nerelys
• 0
1
vote
1
reply
171
views
The volcano plot shows data with an arm-shaped enrichment.
volcanoplot
updated 2 days ago by
ATpoint
87k • written 2 days ago by
lea.preuss
• 0
0
votes
0
replies
128
views
Tool:
GENetLib: A Python Library for Gene–environment Interaction Analysis via Deep Learning
gene-environment
interaction
analysis
2 days ago by
Barry
• 0
9
votes
10
replies
476
views
STAR vs. Kallisto
STAR
kallisto
alignment
RNA-Seq
mapping
updated 1 day ago by
dsull
★ 7.4k • written 2 days ago by
gogeni5529
▴ 70
0
votes
0
replies
112
views
How to Annotate VCF with AlphaMissense Using VEP and dbNSFP v5.1a in Offline Mode?
AlphaMissense
dbNSFP
VEP
ensembl
2 days ago by
DareDevil
★ 4.4k
0
votes
1
reply
196
views
News:
Phylogenetic Comparative Methods in R (12–16 May, Online)
R
Phylogenetic-Comparative-Methods
updated 2 days ago by
Meeru
• 0 • written 3 days ago by
Physalia-courses
★ 2.6k
0
votes
1
reply
184
views
Biostar handbook
Handbook
Biostar
updated 2 days ago by
GenoMax
151k • written 2 days ago by
himanshu0102
• 0
2
votes
2
replies
1.4k
views
pangenome - Create a diagram venn
roary
grep
awk
pangenome
venn
updated 2 days ago by
mplace
▴ 40 • written 2.0 years ago by
BATMAN
• 0
4
votes
4
replies
302
views
Addressing two nuisance factors in RNAseq
bulkRNAseq
updated 2 days ago by
ATpoint
87k • written 2 days ago by
jkim
▴ 190
0
votes
5
replies
330
views
DRAGEN FILTER
dragen
variant-calling
updated 2 days ago by
GenoMax
151k • written 2 days ago by
theresia.celine
• 0
0
votes
1
reply
296
views
Interpretation of the results: PCA
proteomics
PCA
updated 15 hours ago by
rfran010
★ 1.4k • written 2 days ago by
Ariadna
▴ 20
3
votes
5
replies
355
views
How to check normal BAM_files before create a Panel Of Normals (PoN)
GATK
variant_calling
PoN
2 days ago by
AIMAR
• 0
0
votes
1
reply
228
views
how to handle infinite M-values in methylation array data
M-value
methylation
infinite
array
updated 3 days ago by
Basti
★ 2.1k • written 3 days ago by
matt192
• 0
1
vote
3
replies
1.8k
views
Free and redistributable genomic data sets?
data
software-development
genomics
updated 3 days ago by
Meeru
• 0 • written 9.2 years ago by
woemler
▴ 170
2
votes
5
replies
1.1k
views
Rna-seq data
data
rna-seq
updated 3 days ago by
GenoMax
151k • written 3.2 years ago by
biology_inform
▴ 60
6
votes
3
replies
982
views
RNAseq example data
expression
RNA-Seq
data
next-gen
updated 3 days ago by
ehaag
▴ 20 • written 4.6 years ago by
rakinitopo
▴ 10
0
votes
1
reply
323
views
Transcript_id with "-0" after "flair collapse"
flair
updated 3 days ago by
GenoMax
151k • written 5 months ago by
anna_shin
• 0
0
votes
0
replies
169
views
Can I use glucose measured using two different devices in my study?
normalization
standardization
transformation
3 days ago by
Faith
▴ 50
1
vote
3
replies
717
views
Snakemake - pipeline shut down without error
snakemake
3 days ago by
bhumm
▴ 200
3
votes
2
replies
291
views
Source for `transcript_name` in GTFs
GTF
updated 2 days ago by
Jorge - Ensembl
▴ 30 • written 3 days ago by
gernophil
▴ 120
5
votes
5
replies
645
views
Tool:
Lightweight bash pipeline for ddRADseq read pre-processing, demultiplexing, and de-duplication using cutadapt
rad-seq
ddRADseq
demultiplexing
deduplication
3 days ago by
Rafal
▴ 10
0
votes
2
replies
233
views
How to normalised DNA sequencing depth for genomic variant discovery ?
normalisation
read-depth
variant-calling
updated 3 days ago by
Ram
45k • written 3 days ago by
AIMAR
• 0
2
votes
4
replies
339
views
RNASeq featureCounts Help Needed
fungi
featurecounts
RNASeq
3 days ago by
SomeOne
▴ 170
0
votes
0
replies
182
views
PAUP* error with exporting result file
PAUP
SVDquartet
4 days ago by
ylkim9
• 0
0
votes
1
reply
209
views
I need to convert Axiom output to PLINK format I did not find annotation.db
Axiom
PLINK
apt-format-result
updated 3 days ago by
GenoMax
151k • written 4 days ago by
AlmuhayyaA
• 0
1
vote
3
replies
333
views
How to merge heterogeneously normalized RNA-seq datasets for meta-analysis?
normalization
rna-seq
updated 3 days ago by
ATpoint
87k • written 4 days ago by
pipelinfections
• 0
1
vote
1
reply
278
views
Tool:
I packaged some tools in python pypi for Windows (fastqc, bowtie2, samtools)
python
pypi
updated 23 hours ago by
Dunois
★ 2.9k • written 4 days ago by
Cris
▴ 10
0
votes
3
replies
384
views
Transcript ID
id
transcript
updated 4 days ago by
Meeru
• 0 • written 5 days ago by
cheong
• 0
0
votes
1
reply
255
views
Galaxy + RStudio
R
RNA-seq
RStudio
updated 4 days ago by
swbarnes2
14k • written 4 days ago by
justus
• 0
8
votes
18
replies
3.2k
views
8 follow
How to limit fasta header to 40 characters?
unix
seqkit
fasta
updated 4 days ago by
jena
▴ 320 • written 19 months ago by
fishingline37
• 0
1
vote
2
replies
317
views
Transcript level quantification and gene length scaling for rRNA depleted libraries
RNASeq
updated 4 days ago by
dsull
★ 7.4k • written 4 days ago by
marc.zimmerli
▴ 10
0
votes
0
replies
221
views
Model diagnostics for GAM (Generalised Additive Model)
gam
mgcv
generalized-additive-model
4 days ago by
Tuấn Anh
• 0
2
votes
5
replies
724
views
Forum:
Small‑Lab Data Management & Analytics Tool – What are your biggest pain points?
biotech
startup
updated 4 days ago by
Darked89
4.7k • written 7 days ago by
Novoo
▴ 10
1
vote
1
reply
284
views
landscape of RNA types and their functions/ scRNA
transcriptomics
scRNA
biology
updated 4 days ago by
ATpoint
87k • written 5 days ago by
Ariadna
▴ 20
1
vote
5
replies
468
views
Is vg toolkit suitable for haplotype calling?
pangenome
haplotype
vg
updated 1 day ago by
Jordan M Eizenga
▴ 700 • written 4 days ago by
Pau
• 0
0
votes
0
replies
211
views
Dfam annotations
dfam
5 days ago by
frarodmar17
• 0
0
votes
3
replies
499
views
miRNA alignment and count generation
aligment
Mapping
Bowtie
miRNAs
updated 5 days ago by
i.sudbery
21k • written 8 days ago by
omicon
▴ 40
1
vote
2
replies
330
views
Cytoscape Node Size Mapping
Cytoscape
5 days ago by
William
▴ 20
121,052 results • Page
1 of 2422
Recent Votes
Rna-seq data
Comment: Pre-Made STAR Index for mm10 Mouse Genome
Answer: Unable to find mitochondrial genes in latest rat genome(GRCr8)
How To Find The Pan Genome Of 30 Bacterial Strains
Current best practive to liftOver many SNVs from hg19 to GRCh38
Current best practive to liftOver many SNVs from hg19 to GRCh38
Comment: How to download the entire C. elegans genome from WormBase into Excel with autom
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Comment: How to generate identiy score between aligned sequences with Mauve?
by
GenoMax
151k
According to the manual a file is supposed to be produced by Mauve: https://darlinglab.org/mauve/user-guide/files.html#:~:text=The%20identi…
Answer: How to generate identiy score between aligned sequences with Mauve?
by
GenoMax
151k
`FastANI` has bee recommended by users here for this type of comparison (since you are mentioning `Mauve` you are likely referring to genom…
Comment: Cosmic database update issue in annovar
by
Ahmed
• 0
Ensure that the cosmic input files are not compressed. Also, Try using following prepare_annovar_user.pl: `http://www.openbioinformatics.o…
Answer: Cluster annotation in single cell
by
Shiyang
• 0
I'd like to recommend a new tool called **mLLMCelltype** that can greatly simplify the cluster annotation process for single-cell RNA-seq d…
Comment: Interpretation of the results: PCA
by
rfran010
★ 1.4k
I would say exact interpretations depend more on the nature of the data, experimental setup, and data processing steps. You provided some g…
Answer: Finding matched RNA-seq and Ribo-seq datasets for Nicotiana benthamiana under th
by
colindaven
7.4k
This might be very tricky. Try here https://sra-explorer.info/ Search for: ("Nicotiana benthamiana"[Organism] OR Nicotiana bent…
Comment: Pre-Made STAR Index for mm10 Mouse Genome
by
colindaven
7.4k
HiSat is another RNA-seq aligner which uses less RAM.
Comment: How to download the entire C. elegans genome from WormBase into Excel with autom
by
GenoMax
151k
Ah yes. I missed that button under step 2 on the query page.
Comment: How to download the entire C. elegans genome from WormBase into Excel with autom
by
Michael
55k
I'd just set the `download results as a tab-delimited file` radio button, and try to import the resulting tab-delimited file (about 8MB, no…
Comment: I packaged some tools in python pypi for Windows (fastqc, bowtie2, samtools)
by
Dunois
★ 2.9k
Firstly, nice work? That said, maybe I'm making a mountain out of a molehill but: > Tool:I packaged From [https://github.com/soda92/bowt…
Comment: Limma model gives weird results
by
SamGG
▴ 90
It is not clear to me how many samples (columns) are there in the `contig.abundance.table`. As the model is fitting 6 coefficients... `k…
Comment: Is vg toolkit suitable for haplotype calling?
by
Jordan M Eizenga
▴ 700
If your reads have errors that look similar to variants, you can certainly get alignment paths that correspond to non-biological transcript…
Comment: How to download the entire C. elegans genome from WormBase into Excel with autom
by
bioinformatics_rk
▴ 10
This is absolutely amazing!! Thank you for such a concise and helpful answer - that's precisely what I wanted! Do you know if there's any w…
Answer: How to download the entire C. elegans genome from WormBase into Excel with autom
by
GenoMax
151k
> I’d like: • One row per gene • One column with the gene name/ID • Another column with Wormbase's automated short description You can go…
Comment: Unable to find mitochondrial genes in latest rat genome(GRCr8)
by
dxj294
• 0
Thanks for pointing it out. I appreciate the help.
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