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185 results • Page
1 of 4
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76
votes
72
replies
19k
views
19 follow
Tutorial:
Clustering of DAVID gene enrichment results from gene expression studies
enrichment
david
3 days ago by
Kevin Blighe
87k
25
votes
11
replies
3.7k
views
6 follow
Forum:
Site Use Guidelines
meta
biostars
Guidelines
updated 5 days ago by
Ram
43k • written 14.6 years ago by
Istvan Albert
100k
19
votes
11
replies
14k
views
10 follow
How Can We Find The Info For 3'Utr And 5'Utr In Gencode Gtf File?
utr
updated 2 days ago by
cmdcolin
★ 3.8k • written 10.8 years ago by
J.F.Jiang
▴ 920
14
votes
10
replies
723
views
6 follow
NGS forensics: how to know if data is fabricated
fastq
STAR
NGS
Illumina
updated 1 hour ago by
Mensur Dlakic
★ 27k • written 1 day ago by
noodle
▴ 530
14
votes
2
replies
7.0k
views
Trouble with Pilon installation
polishing
pilon
installation
updated 4 days ago by
Lissa Cruz Saavedra
• 0 • written 7.3 years ago by
Rox
★ 1.4k
10
votes
6
replies
9.9k
views
6 follow
CDS vs cDNA vs transcript for mapping RNA-Seq reads
Assembly
rna-seq
alignment
updated 2 days ago by
Antonio R. Franco
★ 5.1k • written 6.0 years ago by
williamsbrian5064
▴ 510
8
votes
16
replies
871
views
How to convert plink files to Hapmap Format
GWAS
Plink
updated 2 days ago by
bk11
★ 2.4k • written 7 weeks ago by
Sofia
• 0
8
votes
8
replies
585
views
PCA plot (Suggestions Needed)
DESeq2
PCAplot
updated 3 days ago by
swbarnes2
14k • written 4 days ago by
Aaliya
▴ 10
8
votes
5
replies
5.4k
views
ISCN annotation for SV/CN VCF files
SV
written 7 months ago by
a.beggs
▴ 60
7
votes
2
replies
273
views
Gene set enrichment analysis differences between 2020 and 2024
Gene-ontology
updated 5 days ago by
geneontologyhelp
▴ 390 • written 6 days ago by
catherine.teyssier
• 0
7
votes
7
replies
5.9k
views
6 follow
How to know synonymous and non-synonymous SNPs from transcriptome sequencing
RNA-Seq
SNP
updated 3 days ago by
rohitsatyam102
▴ 850 • written 6.1 years ago by
smallfish
▴ 10
6
votes
3
replies
186
views
Interpretting IGV output
IGV
updated 6 days ago by
Carlo Yague
8.7k • written 6 days ago by
analyst
▴ 30
5
votes
3
replies
256
views
Forum:
Ideal PC configurations and operating system for bioinformatics laboratory
PC
updated 5 days ago by
GenoMax
141k • written 5 days ago by
Estevão
• 0
5
votes
4
replies
642
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
4 days ago by
kirillkirilenko
▴ 40
4
votes
7
replies
460
views
To get p-values for the TPM
P-value
TPM
RSEM
updated 3 days ago by
dsull
★ 5.9k • written 4 days ago by
VITALA
• 0
4
votes
2
replies
377
views
Missing protein (VEGF-A) in String db
VGFA
stringdb
updated 2 days ago by
shalespringer
• 0 • written 11 weeks ago by
Phenylananin
▴ 20
4
votes
11
replies
686
views
Redirection of Duplicate PMIDs
pubmed
pmid
updated 4 days ago by
LauferVA
4.2k • written 5 days ago by
dominickd
• 0
4
votes
4
replies
388
views
Tutorial:
how to combine multiple RNAseq count files into a single dataframe in R and unix
Unix
RNAseq
R
updated 1 day ago by
BioinfGuru
★ 1.7k • written 3 days ago by
Ming Tommy Tang
★ 3.9k
4
votes
8
replies
549
views
Create a new bed file with all pairwise combinations between two other bed files, based on bp distance
SNPs
BED
eqtl
bedtools
updated 1 day ago by
Alex Reynolds
35k • written 2 days ago by
J
▴ 10
4
votes
7
replies
610
views
7 follow
Heatmap and rna-seq
RNA-Seq
Heatmap
updated 1 day ago by
dsull
★ 5.9k • written 5 days ago by
qudrat.nii
▴ 10
3
votes
4
replies
670
views
Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (without Blat)
mapping
6 days ago by
rahu
• 0
3
votes
2
replies
278
views
p-value and Boneferroni adjusted p-value the same in R
Bonferroni
R
Statistics
p-value
Fisher
6 days ago by
kristiewyleung
• 0
3
votes
3
replies
244
views
genome assembly records not present in assembly_summary.txt
ncbi
bacteria
assembly
updated 2 days ago by
GenoMax
141k • written 2 days ago by
sapuizait
▴ 10
3
votes
3
replies
232
views
Getting the nucleotide sequence of proteins, having their UniProt IDs
Nucleotide
Genomic
Sequence
Uniprot
Proteins
updated 6 days ago by
GenoMax
141k • written 6 days ago by
Mariana
▴ 10
3
votes
0
replies
164
views
News:
Webinar “Learning Single-cell Atlases” with Dr. Fabian Theis, author of Scanpy on May 8
Scanpy
Generative-AI
scRNA
Machine-Learning
updated 2 days ago by
Ram
43k • written 2 days ago by
Claire Watson
▴ 60
3
votes
3
replies
264
views
Sequence read length shorter than flow cell specification
illumina
NGS
sequencing
updated 3 days ago by
swbarnes2
14k • written 3 days ago by
M
• 0
3
votes
9
replies
463
views
Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
FASTQ
updated 4 days ago by
Istvan Albert
100k • written 6 days ago by
Κοσμάς
• 0
3
votes
3
replies
722
views
KissDE and batch effect
kissDE
kissplice
6 days ago by
david.b.rombaut
▴ 10
3
votes
4
replies
319
views
Why gatk VariantAnnotator required bam and coverage files
gatk
VariantAnnotator
3 days ago by
QX
• 0
3
votes
3
replies
2.3k
views
How to make a TSS enrichment plot in ATAC-seq analysis?
ATAC
updated 3 days ago by
sp
• 0 • written 22 months ago by
Dan
▴ 180
3
votes
6
replies
662
views
Ciriquant not configuring hisat2 indexed files
ciriquant
6 days ago by
Atul K.
• 0
3
votes
1
reply
224
views
Seurat merge and batch correction
Seurat
updated 5 days ago by
Ram
43k • written 5 days ago by
sooni
▴ 20
3
votes
3
replies
204
views
Genbank vs SRA
ncbi
genbank
genomics
sra
updated 6 days ago by
Mensur Dlakic
★ 27k • written 6 days ago by
c_u
▴ 520
3
votes
0
replies
123
views
News:
Interested in Spatial Omics?
Bioconductor
Spatial-Omics
Spatial-Transcriptomics
updated 5 days ago by
Ram
43k • written 5 days ago by
carlopecoraro2
★ 2.5k
3
votes
6
replies
1.9k
views
7 follow
DNA methylation preprocessing
SWAN
DNA
methylation
Funnorm
updated 1 day ago by
Ram
43k • written 2.4 years ago by
SYOSY
▴ 10
3
votes
5
replies
556
views
SLURM submission problem: Indexing the Reference Genome is not done in STAR
align
RNA-Seq
linux
STAR
6 days ago by
n_navy
• 0
3
votes
5
replies
279
views
Per base sequence content error in RNAseq analysis
RNA-seq
analysis
updated 6 days ago by
GenoMax
141k • written 6 days ago by
ahmad.sajad4541
• 0
2
votes
3
replies
332
views
How to establish haplotype-specific gene expression levels
RNA-seq
Haplotype
updated 2 days ago by
dsull
★ 5.9k • written 19 days ago by
javanokendo
▴ 60
2
votes
4
replies
2.4k
views
How could I generate a gi_taxid_nucl.dmp file similar to the one previously hosted by NCBI?
ncbi
metagenomics
centrifuge
gi_taxid_nucl.dmp
taxonomy
updated 3 days ago by
ZhangYuanfeng
• 0 • written 2.4 years ago by
Frazier Baker
• 0
2
votes
5
replies
459
views
Marking duplicates using UMIs
Deduplication
UMI
updated 6 days ago by
i.sudbery
19k • written 7 days ago by
Lipika
• 0
2
votes
4
replies
285
views
interpretartion of a vcf file
calling
genotype
ONT
variant
diploid
4 days ago by
samuelkalandarov2002
▴ 10
2
votes
3
replies
956
views
Method to detect genome doubling
CNV
genome doubling
updated 6 days ago by
LauferVA
4.2k • written 4.5 years ago by
CY
▴ 750
2
votes
6
replies
3.7k
views
Treatment VS Control in Single Cell RNAseq analysis
Single Cell
RNAseq
DE Analysis
Treatment
Control
updated 3 days ago by
ATpoint
82k • written 3.9 years ago by
grayapply2009
▴ 280
2
votes
9
replies
846
views
TCGA2STAT Error: Firehose connection
FIREHOSE
TCGA
updated 4 days ago by
LauferVA
4.2k • written 6 months ago by
Gnana
• 0
2
votes
5
replies
308
views
How to trim transcripts using information from NCBI contamination screen report
RNAseq
assembly
transcriptome
contamination
2 days ago by
Lada
▴ 30
2
votes
4
replies
322
views
What is the real meaning of relative enrichment/peak height of ChIP-seq tracks?
ChIP-seq
4 days ago by
HyperEvo
• 0
2
votes
3
replies
210
views
from row count to tpm
tpm
row-count
normalization
5 days ago by
michelafrancesconi9
▴ 20
2
votes
4
replies
308
views
Should I use unpaired reads from trimmomatic
RNA-seq
QC
Trimmomatic
updated 5 days ago by
swbarnes2
14k • written 6 days ago by
dxj294
• 0
2
votes
2
replies
221
views
HaplotypeCaller - only SNPs
HaplotypeCaller
GATK
updated 4 days ago by
analyst
▴ 30 • written 4 days ago by
lorena9132
• 0
2
votes
3
replies
256
views
Figures are disappeared from html report of SnpEff
HTML
SnpEff
updated 3 days ago by
Pierre Lindenbaum
161k • written 3 days ago by
analyst
▴ 30
185 results • Page
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Answer: NGS forensics: how to know if data is fabricated
Answer: NGS forensics: how to know if data is fabricated
Comment: NGS forensics: how to know if data is fabricated
Answer: NGS forensics: how to know if data is fabricated
Comment: NGS forensics: how to know if data is fabricated
Comment: NGS forensics: how to know if data is fabricated
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Recent Replies
Comment: PDB related issue
by
Mensur Dlakic
★ 27k
The best way to find out is to read the original paper. My guess is that the residue has been crystallized in alternative conformations, wh…
Answer: NGS forensics: how to know if data is fabricated
by
Mensur Dlakic
★ 27k
I share the opinion by @philippbayer I have seen enough questionable things in life and in science to keep me permanently jaded, but there…
Comment: How many reads for WGS Sequencing?
by
Mensur Dlakic
★ 27k
I downloaded the data in two files from the link you provided. With this command: megahit -1 ERR072246_1.fastq.gz -2 ERR072246_2.fastq…
Comment: How many reads for WGS Sequencing?
by
Mensur Dlakic
★ 27k
If you have Linux the assembly should work on your system, but 8 GB is generally not enough for assembling larger genomes.
Comment: How many reads for WGS Sequencing?
by
Mensur Dlakic
★ 27k
I think you might be getting stuck on less relevant parts of my exercise. The most important point was that nothing is wrong with the data.…
Comment: What does it mean single base resolution in sequencing?
by
dsull
★ 5.9k
Great comprehensive explanation and overview of the technologies -- with regards to sequencing assays, the one thing I'd add is SNV identif…
Answer: What does it mean single base resolution in sequencing?
by
dsull
★ 5.9k
I think that term means slightly different things in different contexts. For example, it's useful to profile mRNA modifications (e.g. m6a) …
Comment: Cannot process all the reads in a fast5 file?
by
chujie
• 0
Hi, I met the same problem, have you found the solution?
Answer: What does it mean single base resolution in sequencing?
by
LauferVA
4.2k
Hi @fe3e6f65 , In a single sentence, the answer to your question can be summarized as, "*the resolution of a genomic technology refers to …
Comment: PCA plot
by
LauferVA
4.2k
Without more context, we cannot interpret this PCA plot. There are many possibilities. In addition, this question is basic enough that it w…
Comment: NGS forensics: how to know if data is fabricated
by
Jeremy Leipzig
22k
i have the name ready: out**liar**
Comment: What does it mean single base resolution in sequencing?
by
GenoMax
141k
Sequencing by hybridization (https://en.wikipedia.org/wiki/Sequencing_by_hybridization ) is likely not giving you single base resolution. B…
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Hii... i have updated the script in python..But, still getting no data found. Actually the data is there, i have print the parsed html file…
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https://bioconductor.org/books/release/OSCA.multisample/using-corrected-values.html
Comment: Downloading full alignments from Pfam
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141k
Not as convenient but the entire set of full alignments can be downloaded here: https://ftp.ebi.ac.uk/pub/databases/Pfam/current_release/Pf…
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