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
122,217 results • Page
730 of 2445
Sort: Rank
Rank
Views
Votes
Replies
1
vote
1
reply
772
views
PCA plot with PC3 and PC4 using ggbiplot
R
4.8 years ago by
ukhan
▴ 10
3
votes
7
replies
2.8k
views
Which aligner for human WGS
WGS
alignment
genome
updated 3.3 years ago by
predeus
★ 2.1k • written 4.8 years ago by
quentin54520
▴ 120
0
votes
1
reply
1.3k
views
CNVKit sex specification in controls pool
CNVKit
sex
control
pool
updated 4.8 years ago by
Eric T.
★ 2.9k • written 4.8 years ago by
atariw
▴ 10
0
votes
0
replies
674
views
rMATS reading only part of gtf issue
rna-seq
4.8 years ago by
valopes
▴ 30
2
votes
6
replies
5.1k
views
Algorithm to remove batch effects
single-cell
batch-effect
RNA-Seq
updated 19 months ago by
Ram
45k • written 4.9 years ago by
fouerghi20
▴ 90
1
vote
2
replies
3.6k
views
BUSCO - issue reading the fasta file
BUSCO
RNA-Seq
Assembly
software error
updated 4.8 years ago by
Biostar
20 • written 8.8 years ago by
BioBing
▴ 150
0
votes
5
replies
1.5k
views
which kind of normalization is suitable for corr.test
R
RNA-Seq
gene
updated 4.8 years ago by
Rogerio Ribeiro
▴ 110 • written 4.8 years ago by
diqixiaoyaoer
▴ 20
1
vote
2
replies
1.0k
views
RNA Seq FAQ: What if the gene was never present/expressed in control sample?
RNA-Seq
updated 4.8 years ago by
ATpoint
90k • written 4.8 years ago by
Dr SKY
▴ 30
0
votes
0
replies
1.2k
views
EpiMap enhancer data access
enhancer
EpiMap
hdf5
EnhancerAtlas
4.8 years ago by
michael.j.apostolides
▴ 80
1
vote
1
reply
891
views
"SNP" record in vcf looks like this: 6:28035427:GTA:ATA ?
vcf
4.8 years ago by
curious
▴ 900
1
vote
2
replies
1.4k
views
Genome for mouse Chip-seq analysis
ChIP-Seq
updated 4.8 years ago by
ATpoint
90k • written 4.8 years ago by
luckysardar171
▴ 20
0
votes
1
reply
1.4k
views
question about homer
sequencing
merip-seq
motif
homer
updated 4.6 years ago by
boczniak767
▴ 880 • written 4.8 years ago by
13719756608
• 0
0
votes
11
replies
1.7k
views
Question: perl warning message
Assembly
updated 4.8 years ago by
Jeremy Leipzig
23k • written 4.8 years ago by
hafida.bioinfo.125
• 0
0
votes
3
replies
2.0k
views
How to create GTF file for small nuclear RNA and small nucleolar RNA
next-gen
RNA-Seq
updated 4.8 years ago by
basuanubhav
▴ 140 • written 4.8 years ago by
jli.ww
• 0
0
votes
2
replies
1.1k
views
Gene ID translation
R
GeneID
4.8 years ago by
Kira
• 0
6
votes
6
replies
1.7k
views
Is there a site that provides genome size sort?
genome
updated 4.8 years ago by
Dave Carlson
★ 2.2k • written 4.8 years ago by
Saber_J
▴ 20
2
votes
1
reply
1.2k
views
HOW to design a single strand primer
primer-design
PCR
updated 2.7 years ago by
Ram
45k • written 4.8 years ago by
kumajis
• 0
0
votes
1
reply
775
views
"Identical Protein Groups" from PDB database
alignment
4.8 years ago by
dhepag
• 0
0
votes
0
replies
1.4k
views
Updated InterVar annotations
InterVar
Annotation
ACMG
indels
updated 4.8 years ago by
Biostar
20 • written 5.0 years ago by
luca t
• 0
4
votes
11
replies
5.6k
views
Retrieve TCGA file ID and associated barcode with TCGAbiolinks: "GDC server down"
TCGA
TCGAbiolinks
GenomicDataCommons
updated 4.8 years ago by
1830416019
• 0 • written 7.4 years ago by
user31888
▴ 150
3
votes
5
replies
1.7k
views
Getting RNA expression from TCGA only for these patients IDs
TCGA
r
RNA-Seq
updated 4.8 years ago by
1830416019
• 0 • written 6.0 years ago by
zizigolu
★ 4.4k
0
votes
2
replies
3.1k
views
How to parse Newick into line format?
tree-parsing
alignment
sequence
updated 2.8 years ago by
Ram
45k • written 10.6 years ago by
seb85il
• 0
1
vote
4
replies
1.4k
views
Over-expression of genes
RNA-Seq
genome
gene
updated 4.8 years ago by
seidel
11k • written 4.8 years ago by
glady
▴ 320
0
votes
2
replies
1.5k
views
What to do with mapped reads after assembly?
Assembly
annotation
4.8 years ago by
DNAngel
▴ 260
23
votes
7
replies
2.6k
views
6 follow
Forum:
Where to start? Newbie trying to enter the world of computational biology getting lost
cytoscape
RNA-Seq
R
updated 2.7 years ago by
Ram
45k • written 4.9 years ago by
qmarulfiz
▴ 60
0
votes
1
reply
554
views
Obtaining Age from dbGaP data
RNA-Seq
updated 4.8 years ago by
Biostar
20 • written 4.8 years ago by
tgarcia2
• 0
0
votes
0
replies
1.2k
views
How to Output Branch Length Sum (Evolutionary Distance) From Newick
genome
newick
branch length
4.8 years ago by
geshapiro01
• 0
0
votes
3
replies
3.1k
views
Why is the bowtie option (--no-unal) not present in the help?
Bowtie
alignment
mapping
4.8 years ago by
jaqx008
▴ 110
1
vote
18
replies
2.4k
views
problem when create an expression matrix using a table
RNA-Seq
software error
R
expression
updated 4.8 years ago by
rpolicastro
13k • written 4.8 years ago by
Lila M
★ 1.3k
0
votes
1
reply
2.2k
views
Adding SNP ID to original VCF file
plink
SNP
vcftools
updated 4.8 years ago by
chrchang523
11k • written 4.8 years ago by
rs146
• 0
0
votes
2
replies
2.5k
views
Job:
Computational Biologist at MOMA Therapeutics (Greater Boston, MA, USA)
molecular-machines
moma
updated 2.5 years ago by
Ram
45k • written 4.8 years ago by
B. Arman Aksoy
★ 1.2k
0
votes
3
replies
1.1k
views
ProSite Scan Tool and finding similar hits
sequencing
updated 4.8 years ago by
Mensur Dlakic
★ 30k • written 4.8 years ago by
anapaolavi
• 0
1
vote
2
replies
4.8k
views
Better way for speedup of Humann3 metagenomics analysis pipeline?
alignment
metagenomics
humann
pipeline
updated 4.8 years ago by
Raygozak
★ 1.4k • written 5.4 years ago by
boaty
▴ 220
0
votes
4
replies
1.6k
views
Server to host bam files
RNA-Seq
alignment
bam
4.8 years ago by
vkkodali_ncbi
★ 3.9k
0
votes
2
replies
3.9k
views
Hisat2 / (ERR): hisat2-align exited with value 1
alignment
software error
updated 4.8 years ago by
Biostar
20 • written 4.9 years ago by
ziziqolo
▴ 10
0
votes
0
replies
930
views
Error in RnBeads analysis of Infinium 450k assay methylation data
RnBeads
R
SNP
idat.files
illuminia
4.8 years ago by
saba_nasir111
• 0
0
votes
1
reply
1.6k
views
Efficient way to download all .bam files in a project from ENA to remote server
ENA
bam
updated 2.7 years ago by
Ram
45k • written 4.8 years ago by
4galaxy77
2.9k
1
vote
7
replies
2.0k
views
Extract longest transcript from Ensembl gene table
bash
gene
ensembl
R
4.8 years ago by
Midge
• 0
9
votes
4
replies
1.7k
views
interprating PCA plot
PCA
RNA-Seq
updated 2.0 years ago by
ATpoint
90k • written 4.8 years ago by
adR
▴ 130
0
votes
0
replies
632
views
Protein Mutagenesis Workflow
snp
RNA-Seq
4.8 years ago by
yoh1242
▴ 10
0
votes
4
replies
2.9k
views
md5 checksums for GEO data downloads
GEO
Gene Expression Omnibus
md5
updated 4.8 years ago by
ATpoint
90k • written 4.8 years ago by
Nikolay_Ivanov
• 0
6
votes
6
replies
2.6k
views
probe ID to ensemble
conversion
ensembl
probe id
4.8 years ago by
dxodnd
• 0
4
votes
11
replies
2.7k
views
How to write it in R language?
R
function
programming
coding
updated 4.8 years ago by
ozankiratli
▴ 150 • written 4.8 years ago by
Farah
▴ 80
2
votes
4
replies
3.1k
views
Dispersion estimation using DESeq2
RNA-Seq
deseq2
updated 4.8 years ago by
ATpoint
90k • written 4.8 years ago by
hpapoli
▴ 170
0
votes
6
replies
4.3k
views
Calculate Dn/Ds for nucleotide sequences using codeml, hyphy or SNAP.
Paml
codeml
SNAP
hyphy
4.8 years ago by
sharmatina189059
▴ 110
0
votes
0
replies
741
views
InterVar execution result does not show the desired annotation information.
InterVar
updated 4.8 years ago by
GenoMax
154k • written 4.8 years ago by
seabed0705
• 0
0
votes
0
replies
838
views
Venn diagram signficance of overlap calculation
RNA-Seq
R
4.8 years ago by
bojkem91
• 0
1
vote
1
reply
2.0k
views
Help generating multiple annotations under one H3K27me3 peak
ChIP-Seq
R
chipseeker
updated 4.6 years ago by
Aspire
▴ 390 • written 4.8 years ago by
Rory Osborne
▴ 10
0
votes
2
replies
1.2k
views
Annotating tsv files
RNA-Seq
ChIP-Seq
R
updated 4.8 years ago by
Pierre Lindenbaum
166k • written 4.8 years ago by
evelena02
• 0
3
votes
5
replies
1.7k
views
problem to aligning FASTQ through BWA aligner
genome
BWA
alignment
updated 4.8 years ago by
andres.firrincieli
3.9k • written 4.8 years ago by
modarzi
▴ 170
122,217 results • Page
730 of 2445
Recent Votes
Comment: circos plot for genomic features
Answer: How to perform GO enrichment in non-model organisms?
Comment: circos plot for genomic features
Answer: How excactly is the Q30 is calculated?
A: PCA in a RNA seq analysis
what cause poly-G from NextSeq
what cause poly-G from NextSeq
Recent Locations •
All
United States,
1 minute ago
United States,
24 minutes ago
United States,
40 minutes ago
Moscow,
1 hour ago
Ghent & Brussels, Belgium,
1 hour ago
France/Nantes/Institut du Thorax - INSERM UMR1087,
2 hours ago
United States,
2 hours ago
Recent Awards •
All
Popular Question
to
Synat
• 0
Popular Question
to
Dan
▴ 180
Popular Question
to
sahalpaladan
▴ 10
Popular Question
to
Amb@r85
▴ 10
Popular Question
to
hello_bioinf
▴ 250
Popular Question
to
tacrolimus
▴ 150
Popular Question
to
biotrekker
▴ 110
Recent Replies
Comment: Issue while running Kenddata.
by
GenoMax
154k
Look inside the `*.log` files to see if you can get additional clues (and post them here, if you can't figure out things). Check for lines …
Comment: Question about QC and scrublet
by
Arup Ghosh
3.5k
You can run Scrublet before filtering cells with high gene counts and compare the doublet score vs `n_counts_genes`.
Answer: How to perform GO enrichment in non-model organisms?
by
lieven.sterck
16k
In first instance you will as you say need to assign GOterms to your genes. eggNOG-mapper is certainly a valid approach to do this indeed. …
Comment: circos plot for genomic features
by
Matteo Ungaro
▴ 140
@colindaven thanks a lot! `clinker` also seems to be a nice/effective tool to do so. It happens we stuble across a work where they used `Ci…
Comment: circos plot for genomic features
by
colindaven
8.1k
Why not use something like Jbrowse2 instead ? https://jbrowse.org/jb2/gallery/ You can load both haplotypes, use minimap2 to create a paf …
Comment: How excactly is the Q30 is calculated?
by
colindaven
8.1k
This is really a question for your instrument provider. Only MGI application specialists and their bioinformaticians can really answer this…
Answer: How excactly is the Q30 is calculated?
by
GenoMax
154k
[**Phred quality scores**][1] have been in use since the 1990s and early days of human genome project. They were co-opted in the fastq form…
Comment: best practice for diploid variant calling
by
Matteo Ungaro
▴ 140
@kevin thanks I was experimenting with the following since I already pursued most of the approaches you mentioned and, in practice, they ar…
Answer: Chip-seq analysis Diffbind
by
ATpoint
90k
I think the results are expected. a) n=2 is underpowered, for any assay and in particular for ChIP-seq which has considerable noise. b) you…
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Wu-Sheng Zhang
▴ 10
Hi @arup , after changing the file name following the read length, I can process them using cellranger arc successfully. Thank you very muc…
Comment: Visualize methylation status in Pacbio Hifi read
by
cmdcolin
★ 4.4k
(as the JBrowse dev) I'm glad to hear this. if you see any trouble with it feel free to let me know, I have tried to keep up to date with m…
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Wu-Sheng Zhang
▴ 10
Got it! I will try to switch their name and re-run the cellranger arc. Thank you very much, @arup !
Answer: low quality data or file name swapping -- cellranger arc errors when processing
by
Arup Ghosh
3.5k
The barcode files with 24nt read length W71_LUNGrep2_S6_L001_R3_001.fastq.gz and W71_LUNGrep2_S6_L002_R3_001.fastq.gz should be the R2.
Comment: ID unifiying across different datasets
by
GenoMax
154k
Each database has their own method of annotation/validation. Depending on resources available there may be a lag between the databases in t…
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Wu-Sheng Zhang
▴ 10
Hi @arup , thank you very much for your suggestions, and here are the results -- they seems correct. May I have your suggestions? Thank you…
Traffic: 3258 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