Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : all time
all time
today
this week
this month
this year
116,643 results • Page
1 of 2333
Sort: Rank
Rank
Views
Votes
Replies
18
votes
17
replies
903
views
8 follow
NGS forensics: how to know if data is fabricated
fastq
STAR
NGS
Illumina
updated 32 minutes ago by
Prash
▴ 270 • written 1 day ago by
noodle
▴ 550
0
votes
0
replies
7
views
Differential accessibility using DiffBinf
diffbind
40 minutes ago by
Shloka
• 0
0
votes
0
replies
16
views
Is it possible to bulk download files from GEO repository?
RNA-seq
Galaxy
Tanscriptomics
updated 1 hour ago by
Ram
43k • written 1 hour ago by
WUSCHEL
▴ 750
0
votes
0
replies
15
views
vg call vs vg surject
variation
graphs
1 hour ago by
aliraza3119
• 0
0
votes
0
replies
13
views
Can I merge Hi-C fastq files from different lanes?
GenomeAssembly
BWA-MEM2
Hi-C
1 hour ago by
Winter
• 0
2
votes
7
replies
1.2k
views
6 follow
Differential Expression using Isoseq-supplemented reference transcriptome
RNA-Seq
Salmon
Isoseq
updated 5 hours ago by
Gordon Smyth
★ 7.0k • written 8 months ago by
Calum
▴ 10
795
votes
167
replies
142k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.7k • written 7.4 years ago by
Istvan Albert
100k
0
votes
0
replies
79
views
Finding batch and outlayers
Pca
updated 1 hour ago by
Ram
43k • written 6 hours ago by
Tigran
• 0
2
votes
2
replies
123
views
PDB related issue
rcsb
pdb
updated 6 hours ago by
noodle
▴ 550 • written 9 hours ago by
Nafi
• 0
0
votes
0
replies
58
views
News:
Online course: Genome Annotation
Genome-Assembly
Genome-Annoration
updated 1 hour ago by
Ram
43k • written 11 hours ago by
carlopecoraro2
★ 2.5k
0
votes
4
replies
183
views
What does it mean single base resolution in sequencing?
SNP
sequencing
updated 10 hours ago by
dsull
★ 5.9k • written 11 hours ago by
jinyu
▴ 10
0
votes
9
replies
2.4k
views
6 follow
Cannot process all the reads in a fast5 file?
metagenome
base-calling
fastq
nanopore
updated 1 hour ago by
Ram
43k • written 8 months ago by
Gio
• 0
2
votes
5
replies
378
views
Fetch table from clinvar database according to a list of rsid
python
clinvar
perl
11 hours ago by
ashaneev07
▴ 20
0
votes
1
reply
108
views
Downloading full alignments from Pfam
pfam
updated 14 hours ago by
GenoMax
141k • written 18 hours ago by
bef1
• 0
0
votes
1
reply
700
views
Can I run cellassign on samples independently if there is batch effect present?
RNA-Seq
R
cellassign
batch-effect
updated 18 hours ago by
Francesco
▴ 10 • written 3.3 years ago by
gt
▴ 30
1
vote
1
reply
189
views
ChIP-seq datasets: input samples omitted?
ChIP-seq
Normalization
NGS
updated 8 hours ago by
ATpoint
82k • written 2 days ago by
vanbelj
▴ 40
0
votes
0
replies
70
views
adjusting for confounders in LMER in R
confounders
LMER
R
23 hours ago by
rene.j.erhardt
▴ 20
4
votes
15
replies
438
views
How many reads for WGS Sequencing?
WGS
Bacterial-Genomics
2 hours ago by
Ruqaiya
• 0
1
vote
3
replies
226
views
How to assign cell types after integration in scRNA
scRNA-seq
updated 12 hours ago by
ATpoint
82k • written 1 day ago by
Francesco
▴ 10
0
votes
0
replies
97
views
STAR total splices (in Log.final) vs collapsed splice junctions (in SJ.out.tab)
STAR
1 day ago by
tnminh89
▴ 10
0
votes
0
replies
106
views
Extract protein sequence
fasta
alighment
blast
1 day ago by
anna
▴ 20
0
votes
0
replies
101
views
Filter low express genes in microarray data
microarray
1 day ago by
Chris
▴ 260
0
votes
1
reply
287
views
absolute path for symbolic links in Snakefile
Snakemake
updated 1 day ago by
Jesse
▴ 740 • written 9 days ago by
yifangt86
▴ 60
0
votes
2
replies
298
views
Hide positions in alignment with 99% "–" characters to ignore single sequence insertions?
alignment
gaps
updated 1 day ago by
Jesse
▴ 740 • written 3 days ago by
Broccoli
• 0
2
votes
3
replies
288
views
Source other conda environments in a nextflow pipeline when nextflow itself is in a conda environment?
hpc
conda
nextflow
updated 1 day ago by
Arup Ghosh
3.2k • written 2 days ago by
chaco001
▴ 40
1
vote
3
replies
318
views
Help understanding how KEGG Ortholog `K00004 ` has 3 ECs associated with it (EC:1.1.1.4, 1.1.1.-, 1.1.1.303)?
ontology
metagenomics
database
enzymes
genomics
updated 10 hours ago by
Mensur Dlakic
★ 27k • written 2 days ago by
O.rka
▴ 710
0
votes
1
reply
190
views
Limma Analysis Agilent Microarray Data (GPL1708)
Microarray
Limma
Agilent
updated 2 days ago by
Gordon Smyth
★ 7.0k • written 2 days ago by
hagl
▴ 10
0
votes
2
replies
223
views
Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
RNA-Seq
edgeR
1 day ago by
Guille
• 0
2
votes
1
reply
189
views
How to use limma to find differentially expressed genes in response to a continuous variable
limma
voom
R
updated 2 days ago by
Gordon Smyth
★ 7.0k • written 2 days ago by
pairedttest
▴ 10
3
votes
6
replies
1.9k
views
7 follow
DNA methylation preprocessing
SWAN
DNA
methylation
Funnorm
updated 2 days ago by
Ram
43k • written 2.4 years ago by
SYOSY
▴ 10
0
votes
0
replies
457
views
Correlation between cell type prediction scores and individual gene expression in spatial transcriptomic datasets
single-cell
Spatial-Transcriptomics
2 days ago by
biocellbio
• 0
4
votes
8
replies
567
views
Create a new bed file with all pairwise combinations between two other bed files, based on bp distance
SNPs
BED
eqtl
bedtools
updated 2 days ago by
Alex Reynolds
35k • written 3 days ago by
J
▴ 10
4
votes
7
replies
623
views
7 follow
Heatmap and rna-seq
RNA-Seq
Heatmap
updated 2 days ago by
dsull
★ 5.9k • written 6 days ago by
qudrat.nii
▴ 10
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
2
votes
2
replies
287
views
what is the purpose of indexing the reference genome (Kallisto)
indexing
Kallisto
updated 2 days ago by
dsull
★ 5.9k • written 3 days ago by
Aaliya
▴ 10
3
votes
0
replies
176
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
0
votes
2
replies
247
views
Rare Disease Variant Pathway Analysis
Pathway-analysis
updated 2 days ago by
Ram
43k • written 3 days ago by
The_PyPanda
▴ 10
0
votes
0
replies
179
views
Phasing VCF Files and Analyzing Reads with Multiple Variants
haplotypes
vcf
phasing
2 days ago by
HarperReed
• 0
3
votes
3
replies
257
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
1
vote
0
replies
140
views
Simulation of label-free bottom-up proteomics expression dataset
label-free
bottom-up
lc-ms
proteomics
2 days ago by
KABILAN
▴ 50
0
votes
0
replies
155
views
Running Phylogenetic Analysis With NCBI Genome
population-genetics
phylogenetic
updated 2 days ago by
Ram
43k • written 2 days ago by
SineWave
• 0
0
votes
0
replies
149
views
RNA-seq: full length gene
RNA-seq
updated 2 days ago by
Ram
43k • written 3 days ago by
Nargis
• 0
1
vote
7
replies
416
views
gvcf joint calling
WES
GATK
VCF
gVCF
21 hours ago by
zihanss
• 0
0
votes
0
replies
142
views
Haplotype Phased Assembly Contigs to Chromosome Annotations
Assembly
phased
Haplotype
Annotation
3 days ago by
turcoa1
• 0
3
votes
3
replies
276
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
0
votes
0
replies
151
views
Designing single-stable RNA molecules
structure
RNA
3 days ago by
Edna
• 0
0
votes
0
replies
165
views
How to visualize/predict the final transcript from Delly output?
WGS
DELLY
3 days ago by
simplitia
▴ 130
0
votes
1
reply
203
views
Normalize scRNAseq data to housekeeping genes to compare several datasets
RNA-sequencing
housekeeping
Single-cell
normalization
updated 3 days ago by
ATpoint
82k • written 3 days ago by
AaronJaime
• 0
0
votes
2
replies
267
views
BLAST using both nucleotides and taxonomic local databases
blast
ncbi
taxid
taxonomy
updated 3 days ago by
GenoMax
141k • written 3 days ago by
Begonia_pavonina
▴ 150
0
votes
2
replies
301
views
why renaming Idents in Seurat object doesn't work?
Seurat
RenameIdents
R
updated 3 days ago by
Ram
43k • written 3 days ago by
Assa Yeroslaviz
★ 1.8k
116,643 results • Page
1 of 2333
Recent Votes
Comment: PDB related issue
Comment: PDB related issue
Comment: NGS forensics: how to know if data is fabricated
Comment: How many reads for WGS Sequencing?
Comment: How many reads for WGS Sequencing?
Comment: How many reads for WGS Sequencing?
Comment: How many reads for WGS Sequencing?
Recent Locations •
All
Australia,
1 minute ago
United States,
2 minutes ago
Hong Kong,
4 minutes ago
Kollam, India,
6 minutes ago
Russia,
6 minutes ago
USA,
7 minutes ago
Mexico,
9 minutes ago
Recent Awards •
All
Popular Question
to
Zhenyu Zhang
★ 1.2k
Popular Question
to
WUSCHEL
▴ 750
Teacher
to
Mensur Dlakic
★ 27k
Teacher
to
Jeremy Leipzig
22k
Popular Question
to
AshleeThomson
▴ 80
Popular Question
to
michael.flower.14
▴ 180
Popular Question
to
Nitin Narwade
★ 1.6k
Recent Replies
Comment: Figures are disappeared from html report of SnpEff
by
analyst
▴ 30
Files are not opening in any of the computer (ubuntu/windows). I rereun snpEff annotation but still output html files are having missing im…
Comment: Figures are disappeared from html report of SnpEff
by
analyst
▴ 30
I reinstalled nodejs: > sudo apt-get install nodejs Its already up to date with version v10.19.0
Answer: NGS forensics: how to know if data is fabricated
by
Prash
▴ 270
Mensur, if I were you, I'd probably contact the CA directly and check with him whether they have reproduced the works recently. There coul…
Comment: NGS forensics: how to know if data is fabricated
by
noodle
▴ 550
Working on it - it's actually a bit difficult. Low coverage of ribosomal proteins. Low coverage of housekeeping genes ...I'm trying to find…
Comment: NGS forensics: how to know if data is fabricated
by
noodle
▴ 550
I'm a bit against pubpeer - have you ever posted there? My gripe with them is that the posts are heavily moderated and EDITED to the point…
Comment: NGS forensics: how to know if data is fabricated
by
Philipp Bayer
8.4k
Thanks Mensur! I'd add that in 9 out of 10 cases, you won't receive a reply to a request for raw data. That's just how scientists are, does…
Comment: How many reads for WGS Sequencing?
by
Ruqaiya
• 0
I had downloaded the two files in a similar manner actually.
Comment: How many reads for WGS Sequencing?
by
Ruqaiya
• 0
ok, i'll try to use fastp. I have only used trimmomatic and cutadapt till now and they dont identify on its own. Except the graph in fastqc…
Comment: How many reads for WGS Sequencing?
by
Ruqaiya
• 0
got it! even if i'm doing the assembly for paired end with both the files do i have set the threshold to 1000bp ?
Comment: NGS forensics: how to know if data is fabricated
by
Philipp Bayer
8.4k
i've been in our org trying to push such a detector, our use-case is much more limited: I want to make simulated eDNA libraries as real as …
Answer: Differential Expression using Isoseq-supplemented reference transcriptome
by
Gordon Smyth
★ 7.0k
> What is the best method to test for differential abundance at the isoform level? Salmon returns TPM values instead of the counts which Li…
Comment: NGS forensics: how to know if data is fabricated
by
benformatics
3.9k
Can you post an IGV screenshot of what this looks like?
Comment: NGS forensics: how to know if data is fabricated
by
benformatics
3.9k
Yeah some of the Illumina machines pre-trim adapters (not sure if this is still the standard). I've also definitely also seen quality-trimm…
Comment: PDB related issue
by
noodle
▴ 550
You can typically find much more useful info in the cif file, for example what you've found is called '_atom_site.pdbx_PDB_ins_code ' and d…
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…
Traffic: 1934 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6