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
49 results • Page
1 of 1
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
6
views
Trouble converting tfam and tped to map and ped files
plink
ped
tfam
tped
map
16 minutes ago by
Samantha
• 0
0
votes
0
replies
7
views
Microbial Signal Transduction Database
MiST
40 minutes ago by
Shravani
• 0
0
votes
0
replies
6
views
Forum:
input file in rmats
rmats
40 minutes ago by
Lambodarswain316
• 0
0
votes
1
reply
44
views
DESeq2 error
DESeq2
updated 40 minutes ago by
ATpoint
82k • written 3 hours ago by
sooni
▴ 20
0
votes
0
replies
17
views
Allele specific expression of imprinted gens from 10x scRNA-seq data
scrna-seq
imprinted
10x
genes
2 hours ago by
singcell
• 0
0
votes
1
reply
37
views
When should I use R-MarkDown over R-Script ?
r
rscript
rmarkdown
updated 41 minutes ago by
ATpoint
82k • written 2 hours ago by
Amr
▴ 160
0
votes
2
replies
34
views
LncRNA Nomenclature
ENST
nomenclature
lncrna
GBB
ENSG
10 minutes ago by
jain72744
▴ 10
0
votes
0
replies
18
views
Nomalization - TCGA, RNA-seq and Microarray
TCGA
RNA-seq
Nomalization
Microarray
2 hours ago by
jain72744
▴ 10
5
votes
2
replies
75
views
EdgeR - relationship between logFC and coefficients
differential-expression
r
edger
updated 1 hour ago by
Gordon Smyth
★ 7.1k • written 4 hours ago by
gBioStar5
▴ 10
2
votes
5
replies
233
views
Importing a fastq file
Fastq
updated 4 hours ago by
size_t
▴ 120 • written 1 day ago by
oumo
• 0
0
votes
0
replies
42
views
Question about methylation location
Methylation
WGBS
bisulfide
7 hours ago by
Eren
• 0
0
votes
0
replies
44
views
Krona Pie-chart taxanomy IDs were not found warning. Taxonomy Classification Metagenomics
Classification
Metagenomics
Krona
Kraken2
7 hours ago by
Aytaç
• 0
0
votes
0
replies
51
views
How do I calculate SE or P value if I only have BETA
prscsx
se
pvalue
beta
9 hours ago by
curious_butterfly
• 0
0
votes
0
replies
51
views
supervised admixture
supervised
admixture
10 hours ago by
RT
▴ 10
0
votes
0
replies
56
views
Two-Sample Mendelian Randomization: Association between Instrumental Variable and Outcome
Randomization
Mendelian
two-sample
11 hours ago by
Nikki
• 0
2
votes
0
replies
53
views
News:
course on Landscape Genomics at the EPFL in Lausanne (June 17-21)
LandscapeGenomics
SNPs
LocalAdaptation
GIS
12 hours ago by
carlopecoraro2
★ 2.5k
0
votes
8
replies
277
views
Different output for read length
samtools
BAM
10 hours ago by
marco.barr
▴ 100
0
votes
1
reply
267
views
Snakemake fails to find conda in PBS
snakemake
updated 14 hours ago by
tim.booth
▴ 60 • written 27 days ago by
yixinzeng
• 0
0
votes
2
replies
120
views
Presence of unknown sites in ANNOVAR output file
ANNOVAR
updated 13 hours ago by
GenoMax
142k • written 15 hours ago by
sainavyav22
• 0
0
votes
1
reply
95
views
Truncated metadata file report from ENA Portal API
ena
python
updated 10 hours ago by
GenoMax
142k • written 15 hours ago by
Giulia
• 0
0
votes
0
replies
58
views
What is workflow for de-novo assembling of nuclear and mito genomes of non-model organisms
de-novo
WGS
DNA-seq
assembling
15 hours ago by
Matvii Mykhailichenko
• 0
0
votes
3
replies
463
views
JASPAR2024_getMatrixSet error
JASPAR2024
getMatrixSet
updated 16 hours ago by
Ram
43k • written 11 weeks ago by
maplewj
▴ 10
0
votes
3
replies
141
views
How to convert normalized BigWig file to count matrix?
count-matrix
BigWig
updated 16 hours ago by
Ram
43k • written 18 hours ago by
feather-W
• 0
0
votes
3
replies
195
views
bcftools - reducing to "sites-only"?
sites-only
bcftools
updated 17 hours ago by
Pierre Lindenbaum
161k • written 1 day ago by
Matthew
• 0
0
votes
1
reply
88
views
input file for alternative splicing in rmats in linux
rmats
updated 15 hours ago by
Ram
43k • written 18 hours ago by
Lambodarswain316
• 0
0
votes
2
replies
152
views
Server or aws cloud- which one is better for gatk pipeline
aws
server
calling
gatk
cloud
updated 19 hours ago by
Michael
54k • written 1 day ago by
ashaneev07
▴ 20
1
vote
1
reply
394
views
ComBat_Seq stuck adjusting the data
Batch-Effect
RNAseq
ComBat-Seq
updated 19 hours ago by
Jaïr
• 0 • written 4 months ago by
NorbertK
▴ 10
4
votes
3
replies
1.9k
views
How to solve the error 'ERROR::MATE_NOT_FOUND:Found xxx unpaired mates' when run SamToFastq
samtofasq
picard
validatesamfile
updated 19 hours ago by
Pierre Lindenbaum
161k • written 21 hours ago by
Lila M
★ 1.2k
1
vote
3
replies
148
views
Nextflow: how to get the process work dir, within the process
nextflow
updated 20 hours ago by
Pierre Lindenbaum
161k • written 20 hours ago by
ScottDansk
▴ 10
1
vote
0
replies
84
views
What is Deepvariant default filtering values ?
vcf
calling
filter
variant
deepvariant
21 hours ago by
Shae
▴ 10
0
votes
1
reply
145
views
Enhanced Volcano-Cut off
foldchange
enhancedvolcano
updated 23 hours ago by
marco.barr
▴ 100 • written 1 day ago by
odi
▴ 10
0
votes
6
replies
2.1k
views
Copy number Variation analysis using conumee
R
software error
sequencing
genome
updated 19 hours ago by
GenoMax
142k • written 3.2 years ago by
gs000095
▴ 10
1
vote
1
reply
111
views
Conda severely broken after attempting mamba install
biopython
conda
mamba
pycosat
updated 23 hours ago by
andres.firrincieli
3.6k • written 1 day ago by
kacollier
▴ 30
0
votes
0
replies
91
views
Long reads and fixing of mate-pair issues/marking duplicates with samtools
mate-pair
samtools
alignment
21 hours ago by
Zeng Hao
▴ 40
0
votes
3
replies
196
views
Contig assembly task, errors
genetics
contig
assembly
dna
bioinformatics
updated 5 hours ago by
Philipp Bayer
8.4k • written 1 day ago by
rackbersingh
• 0
1
vote
3
replies
192
views
Help with Biopython for Beginner
Python
ORF
FASTA
Biopython
updated 14 hours ago by
GenoMax
142k • written 1 day ago by
cput
• 0
0
votes
5
replies
368
views
Filtering Multi-sample VCF file for all except one Genotype
variant
SNP
VCF
updated 14 hours ago by
Jeremy Leipzig
22k • written 2 days ago by
schmince
• 0
0
votes
2
replies
215
views
featureCounts output summary assigned value higher than uniquely mapped reads from HISAT2
RNA-seq
featureCounts
HISAT
updated 21 hours ago by
i.sudbery
19k • written 1 day ago by
Prawesh
• 0
2
votes
4
replies
281
views
RNA seq analysis
DESeq
RNA-seq
updated 12 hours ago by
s.ghazala
• 0 • written 1 day ago by
prifa
▴ 10
0
votes
0
replies
148
views
Why does my Hi-C contact map show large regions making little to no contact?
BWA-MEM2
Hi-C
PretextMap
23 hours ago by
Winter
• 0
0
votes
2
replies
171
views
Correlation Analysis
statistics
methylation
NGS
expression
23 hours ago by
Researcher
▴ 30
0
votes
0
replies
98
views
how to downlad slices of CRAM fro ICGC ARGO
icgc
samtools
cram
21 hours ago by
Javier
• 0
1
vote
7
replies
477
views
Question regarding WGCNA
WGCNA
Network-construction
16 hours ago by
deepak
• 0
1
vote
3
replies
284
views
Problem with Seurat package in PercentageFeatureSet function
cell
single
updated 11 hours ago by
bk11
★ 2.4k • written 5 days ago by
Yoosef
▴ 60
3
votes
3
replies
410
views
absolute path for symbolic links in Snakefile
Snakemake
updated 9 hours ago by
Jesse
▴ 770 • written 20 days ago by
yifangt86
▴ 60
1
vote
0
replies
170
views
phasing tumor long-reads
nanopore
ONT
haplotag
phasing
tumor
15 hours ago by
eebloom
▴ 80
1
vote
3
replies
434
views
cellranger error message
multiplexing
cellranger
updated 12 hours ago by
Max
• 0 • written 12 weeks ago by
Alivia
▴ 10
4
votes
12
replies
4.8k
views
10 follow
How to analyze Infinium Mouse Methylation BeadChip array data?
Methylation
Experience
Illumina
Mouse
updated 17 hours ago by
Tawny
▴ 180 • written 3.0 years ago by
julia_geh
▴ 20
0
votes
3
replies
677
views
Pluritest for pluripotency broken
pluripotent
pluritest
cells
stem
updated 22 hours ago by
DGTool
• 0 • written 21 months ago by
yassine
• 0
49 results • Page
1 of 1
Recent Votes
Comment: Importing a fastq file
EdgeR - relationship between logFC and coefficients
Answer: EdgeR - relationship between logFC and coefficients
Detecting highly variable genes within replicates
Detecting highly variable genes within replicates
A: Detecting highly variable genes within replicates
How to set a threshold for coefficient of variation in RNA-seq?
Recent Locations •
All
Tehran,
just now
San Francisco,
1 minute ago
South Korea,
2 minutes ago
Thailand,
4 minutes ago
Germany,
5 minutes ago
Perth, Australia,
5 minutes ago
Russia,
6 minutes ago
Recent Awards •
All
Popular Question
to
Amr
▴ 160
Commentator
to
rpolicastro
13k
Popular Question
to
singcell
• 0
Teacher
to
Gordon Smyth
★ 7.1k
Popular Question
to
anithanagaraj93
▴ 10
Scholar
to
Jesse
▴ 770
Commentator
to
andres.firrincieli
3.6k
Recent Replies
Comment: LncRNA Nomenclature
by
jain72744
▴ 10
My data is based on gene counts and the respective gene IDs are given so I should work with ENSGs? lncRNA_transcripts <- getBM(attributes …
Answer: DESeq2 error
by
ATpoint
82k
At least one group needs replication. That is the short answer. For a longer answer add details on experimental design.
Comment: When should I use R-MarkDown over R-Script ?
by
ATpoint
82k
What is your motivation to ask? Add some context. Beyond that, always use Rmd unless you write package code.
Comment: LncRNA Nomenclature
by
ATpoint
82k
RNA-seq is typically analyzed on gene rather than transcript level. Are your counts gene or transcript?
Comment: EdgeR - relationship between logFC and coefficients
by
gBioStar5
▴ 10
Thanks a lot, this was very helpful. I'll keep that in mind.
Answer: EdgeR - relationship between logFC and coefficients
by
Gordon Smyth
★ 7.1k
Results presented by topTags() are on the log2 scale. Coefficients stored internally in the DGELRT object are on the loge scale. If you con…
Answer: Importing a fastq file
by
size_t
▴ 120
run command `explorer.exe .` in wsl terminal, and then drag file to folder
Comment: Contig assembly task, errors
by
Philipp Bayer
8.4k
Hi Ricardo! CAP3 is an 'older' overlap assembler from 1999 which is perfectly suited for these kinds of 'small' tasks. I used it last in my…
Comment: absolute path for symbolic links in Snakefile
by
Jesse
▴ 770
That's really handy, and much more of a general solution than stripping off the directory names! So yifangt86, if you're on Linux you can …
Comment: Truncated metadata file report from ENA Portal API
by
GenoMax
142k
Are you missing a `"` at the end of the URL. Doing wget -O test.out "https://www.ebi.ac.uk/ena/portal/api/filereport?accession=PRJNA43…
Comment: Different output for read length
by
marco.barr
▴ 100
very strange, I double checked the BAM file and it is the same one I used for your request. Are the commands I wrote above correct? How is …
Comment: Different output for read length
by
Pierre Lindenbaum
161k
the first read as a length of 1747, i wonder how you can just find '50' $ wget -qO - "https://gist.githubusercontent.com/Macdot3/4650…
Comment: Problem with Seurat package in PercentageFeatureSet function
by
bk11
★ 2.4k
Yes, `CreateAssayObject` function is used for only expression matrix.
Comment: Different output for read length
by
marco.barr
▴ 100
Here is my result, I hope you can see it. [https://gist.github.com/Macdot3/4650243a10540d8c06f728ffc16a136c][1] [1]: https://gist.gith…
Comment: Different output for read length
by
marco.barr
▴ 100
I just published my link on paste, why can't I see my public paste on the site?
Traffic: 1872 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