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 : today
all time
today
this week
this month
this year
42 results • Page
1 of 1
Sort: Votes
Rank
Views
Votes
Replies
76
votes
72
replies
19k
views
19 follow
Tutorial:
Clustering of DAVID gene enrichment results from gene expression studies
enrichment
david
6 hours ago by
Kevin Blighe
87k
14
votes
2
replies
7.0k
views
Trouble with Pilon installation
polishing
pilon
installation
updated 9 hours ago by
Lissa Cruz Saavedra
• 0 • written 7.3 years ago by
Rox
★ 1.4k
4
votes
6
replies
295
views
To get p-values for the TPM
P-value
TPM
RSEM
1 hour ago by
VITALA
• 0
3
votes
13
replies
632
views
How to convert plink files to Hapmap Format
GWAS
Plink
updated 15 hours ago by
bk11
★ 2.3k • written 7 weeks ago by
Sofia
• 0
3
votes
8
replies
385
views
PCA plot (Suggestions Needed)
DESeq2
PCAplot
updated 2 hours ago by
swbarnes2
14k • written 1 day ago by
Aaliya
▴ 10
3
votes
9
replies
388
views
Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
FASTQ
updated 19 hours ago by
Istvan Albert
100k • written 2 days ago by
Κοσμάς
• 0
2
votes
4
replies
2.3k
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 4 hours ago by
ZhangYuanfeng
• 0 • written 2.4 years ago by
Frazier Baker
• 0
2
votes
4
replies
239
views
interpretartion of a vcf file
calling
genotype
ONT
variant
diploid
23 hours ago by
samuelkalandarov2002
▴ 10
1
vote
8
replies
652
views
Adding CB tag to bam file
samtools
bam
updated 2 minutes ago by
Pierre Lindenbaum
161k • written 6 days ago by
Maria
• 0
1
vote
4
replies
220
views
How to trim transcripts using information from NCBI contamination screen report
RNAseq
assembly
transcriptome
contamination
updated 14 hours ago by
GenoMax
141k • written 1 day ago by
Lada
▴ 30
1
vote
10
replies
854
views
Troubleshooting RNA-seq data with DNA contamination
RNA-seq
DESeq2
DNA-contamination
12 hours ago by
DKA
▴ 40
1
vote
2
replies
132
views
alignment result
RNA-seq
samtools
hisat2
2 hours ago by
ahmad.sajad4541
• 0
0
votes
2
replies
45
views
Fetch table from clinvar database according to a list of rsid
clinvar
fetching
data
python
perl
updated 20 minutes ago by
Pierre Lindenbaum
161k • written 2 hours ago by
ashaneev07
▴ 20
0
votes
0
replies
65
views
Finding orthologs between genome error
OMA
OMAbrowser
14 hours ago by
hemantcnaik
• 0
0
votes
0
replies
79
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
TCGA
GDCprepare
updated 13 hours ago by
Ram
43k • written 17 hours ago by
glaciya2018
• 0
0
votes
2
replies
151
views
different FeatureCounts output for the same data
fpkm
Counts
Rsubread
rna-seq
updated 13 hours ago by
Ram
43k • written 22 hours ago by
sehriban.buyukkilic
▴ 10
0
votes
0
replies
79
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
rna-seq
single-cell
suppa
alternative-splicing
updated 13 hours ago by
Ram
43k • written 23 hours ago by
newuser2024
• 0
0
votes
0
replies
75
views
News:
hands-on introduction to generalized linear models (GLMs) using R
Generalized-Linear-Models
GLM
R
updated 13 hours ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
71
views
Is result interpretation of the modelHomotypic function of the DoubletFinder correct?
doublet
DoubletFinder
Seurat
modelHomotypic
updated 13 hours ago by
Ram
43k • written 1 day ago by
Jeyong
• 0
0
votes
2
replies
205
views
How to calculate identity percentage between proteins contained in a FASTA file?
protein
FASTA
alignment
updated 13 hours ago by
Ram
43k • written 1 day ago by
v.berriosfarias
▴ 140
0
votes
1
reply
20
views
Figures are disappeared from html report of SnpEff
HTML
SnpEff
updated 10 minutes ago by
Pierre Lindenbaum
161k • written 44 minutes ago by
analyst
▴ 30
0
votes
2
replies
138
views
Creating Synthetic Sequences for a ML Model
DNA
ML
updated 10 hours ago by
Mensur Dlakic
★ 27k • written 13 hours ago by
biochugs
• 0
0
votes
0
replies
130
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome
PGAP
NCBI
roary
Prokka
18 hours ago by
pramach1
▴ 40
0
votes
1
reply
109
views
Annovar using R package
Annovar
gnomAD
R
updated 9 hours ago by
Pierre Lindenbaum
161k • written 12 hours ago by
DKA
▴ 40
0
votes
0
replies
57
views
Can you give me an example of a small globular protein (PDB) that has disordered alpha-carbons?
protein
pdb
alpha-carbon
7 hours ago by
4fzcgueyp5
• 0
0
votes
4
replies
2.6k
views
Lositan freezing when generating selection table
LOSITAN
updated 6 hours ago by
evawillms183
• 0 • written 8.3 years ago by
andrepleao
• 0
0
votes
2
replies
182
views
Wilcox test using data slot (log normalized count values) of scRNA-seq between two groups
scRNAseq
19 hours ago by
mropri
▴ 150
0
votes
3
replies
232
views
Heatmap and rna-seq
RNA-Seq
Heatmap
and
updated 5 hours ago by
Kevin Blighe
87k • written 2 days ago by
qudrat.nii
▴ 10
0
votes
2
replies
564
views
Why cd-hit-est not work when sequence identity threshold<0.95?
genome
cluster
sequence
updated 5 hours ago by
Dateline
• 0 • written 21 months ago by
JZX
• 0
0
votes
0
replies
38
views
Tutorial:
how to combine multiple RNAseq count files into a single dataframe in R and unix
Unix
RNAseq
R
4 hours ago by
Ming Tommy Tang
★ 3.9k
0
votes
0
replies
41
views
PCA plot
DESeq2
PCAplot
4 hours ago by
Aaliya
▴ 10
0
votes
14
replies
3.4k
views
6 follow
Tax4Fun2 - error
tax4fun
silva
blast
updated 19 hours ago by
drstalinantony28
• 0 • written 2.2 years ago by
ymj
▴ 10
0
votes
1
reply
100
views
Network Alignment
plugin
Cytoscape
CytoMCS
updated 3 hours ago by
Scooter
▴ 280 • written 23 hours ago by
Akash D
▴ 40
0
votes
5
replies
273
views
Should I remove unlocalized scaffols in reference genome before alignment?
qualimap
alignment
minimap2
GRCh38
assembly
20 hours ago by
njornet
▴ 20
0
votes
6
replies
423
views
Use of Kraken output for functional analysis
metagenomics
kraken
shotgun
updated 22 hours ago by
gv
• 0 • written 23 days ago by
Srinka
▴ 20
0
votes
0
replies
89
views
Sequence BLAST in plus/minus and plus/plus
blast
CRISPR
strand
sequencing
22 hours ago by
salias
• 0
0
votes
1
reply
28
views
Hide positions in alignment with 99% "–" characters to ignore single sequence insertions?
alignment
gaps
updated 55 minutes ago by
b.contreras.moreira
▴ 170 • written 1 hour ago by
Broccoli
• 0
0
votes
4
replies
164
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative
ncbi
asembly
refseq
44 minutes ago by
Bertalan_Takacs
▴ 90
0
votes
1
reply
27
views
Highest variable features in single cell data
cell
single
updated 29 minutes ago by
ATpoint
82k • written 1 hour ago by
Kazo
• 0
0
votes
1
reply
104
views
GEMMA GWAS how to specify factor or numerical for covariates
covariate
GEMMA
GWAS
updated 16 hours ago by
Sofia
• 0 • written 20 hours ago by
mawigoj318
• 0
0
votes
0
replies
67
views
News:
8th Berlin Summer School in NGS Data Analysis - Apply Now
variantcalling
DNAseq
illumina
RNAseq
transcriptomics
17 hours ago by
David Langenberger
11k
0
votes
2
replies
745
views
AGeNT LocatIt
AGeNT
LocatIt
WES
UMI
duplicates
updated 15 hours ago by
barslmn
★ 2.1k • written 2.8 years ago by
jhy
▴ 10
42 results • Page
1 of 1
Recent Votes
Comment: Adding CB tag to bam file
Comment: alignment result
Comment: clustalo - align milions of short seq, memory issue
Answer: clustalo - align milions of short seq, memory issue
Comment: downloading genomes in fasta format from accession ids
Comment: PCA plot (Suggestions Needed)
Answer: PCA plot (Suggestions Needed)
Recent Locations •
All
United States,
2 minutes ago
Belgium,
3 minutes ago
France,
4 minutes ago
Singapore,
5 minutes ago
Canada,
7 minutes ago
Sweden,
9 minutes ago
India,
9 minutes ago
Recent Awards •
All
Centurion
to
analyst
▴ 30
Popular Question
to
anasjamshed
▴ 120
Popular Question
to
camillab.
▴ 160
Popular Question
to
Simone
▴ 10
Popular Question
to
carlopecoraro2
★ 2.5k
Popular Question
to
daffodil
▴ 10
Popular Question
to
Russ
▴ 500
Recent Replies
Comment: Adding CB tag to bam file
by
Maria
• 0
When I try ``` samtools addreplacerg -r "@CB\tID:$cell" -o $cell.bam $LINE``` the CB tag gets add to the header, but the tag in every line …
Answer: Figures are disappeared from html report of SnpEff
by
Pierre Lindenbaum
161k
the remote website providing the javascript or/and the images is down or you're now behind a proxy. Check the firefox console: https://fire…
Comment: Fetch table from clinvar database according to a list of rsid
by
Pierre Lindenbaum
161k
ah ! and your code doesn't work because clinvar ID is not a rs-ID.
Answer: Fetch table from clinvar database according to a list of rsid
by
Pierre Lindenbaum
161k
$ cat input.rs rs11203366 rs11203367 rs874881 rs776453694 rs80324279 rs324420 rs112766203 wget -…
Comment: Highest variable features in single cell data
by
ATpoint
82k
> and these cells are not even in a single cluster. What does this mean? If you run clustering on all cells then every cell is assigned t…
Comment: Is it possible to get a list of representative genomes from a past RefSeq releas
by
Bertalan_Takacs
▴ 90
Yes, I can tell that, but as far as I see it doesn't contain any other information about the genomes, such as if they were representative i…
Answer: Hide positions in alignment with 99% "–" characters to ignore single sequence in
by
b.contreras.moreira
▴ 170
You can try <https://github.com/inab/trimal>
Comment: To get p-values for the TPM
by
VITALA
• 0
yes i want what rsem does and i did try with prior-enhanced option/pRSEM, but i think pRSEM is for chipseq data
Comment: alignment result
by
ahmad.sajad4541
• 0
Thank you so much. Should i proceed for annotation step?
Comment: PCA plot (Suggestions Needed)
by
swbarnes2
14k
The code you already posted in the bioconductor board had simulated data, and the PCA image is the same.
Answer: Network Alignment
by
Scooter
▴ 280
Unfortunately, it's not working for me either, and the web site doesn't exist anymore. You might try reaching out to the authors, but I kn…
Answer: How could I generate a gi_taxid_nucl.dmp file similar to the one previously host
by
ZhangYuanfeng
• 0
JUST GIVE THE ANSWER! Here is the solution: ```bash aria2c -c -s 4 -j 4 \ https://ftp.ncbi.nlm.nih.gov/pub/taxonomy/accession2taxid/pd…
Comment: PCA plot (Suggestions Needed)
by
Aaliya
▴ 10
I have actually used DESeq2 data.
Comment: Why cd-hit-est not work when sequence identity threshold<0.95?
by
Dateline
• 0
So, why? I have 18GB of data, and when -c=0.95, the run ends in about two days, while when -c=0.9, it has been three days and only a little…
Answer: Heatmap and rna-seq
by
Kevin Blighe
87k
Hi, you can take the list of GSEA pathways and then use these via GSVA (https://github.com/rcastelo/GSVA) to create a heatmap. You hav…
Traffic: 2521 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