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95 results • Page
1 of 2
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
35
views
Free/open source 23andme-like analysis
NGS
SNPs
genomics
VCF
2 hours ago by
joe
▴ 500
0
votes
2
replies
318
views
How to get the reference panel for UKBB
UKBB
GWAS
clump
5 hours ago by
航太郎
• 0
0
votes
0
replies
25
views
Spam:
Free Instagram Likes
Free
Likes
Instagram
6 hours ago by
seo2
0
0
votes
1
reply
136
views
Adding CB tag to bam file
samtools
bam
updated 7 hours ago by
swbarnes2
14k • written 8 hours ago by
Maria
• 0
11
votes
12
replies
635
views
Downloaded pdb's on rcsb.org
rcsb
pdb
updated 8 hours ago by
Ram
43k • written 13 hours ago by
iamsmor
• 0
0
votes
0
replies
71
views
Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (without Blat)
mapping
9 hours ago by
rahu
• 0
0
votes
0
replies
67
views
create genewise sync file in popoolation
popoolation
updated 9 hours ago by
GenoMax
141k • written 10 hours ago by
N.Y.Wiyana-Hewage
• 0
0
votes
2
replies
195
views
python file for coding potential calculator
cpc2.py
2 hours ago by
Ashok
• 0
0
votes
2
replies
191
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
2 hours ago by
Ashok
• 0
0
votes
2
replies
182
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
21 minutes ago by
Ashok
• 0
2
votes
2
replies
293
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
updated 14 hours ago by
shelkmike
★ 1.2k • written 21 hours ago by
kirillkirilenko
▴ 30
0
votes
0
replies
76
views
Variant Generation Using Longshot
long-reads
variant-calling
ONT
minion
longshot
updated 14 hours ago by
Ram
43k • written 14 hours ago by
samuelkalandarov2002
• 0
1
vote
1
reply
228
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
14 hours ago by
otieno43
▴ 30
0
votes
1
reply
151
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
updated 14 hours ago by
Ram
43k • written 15 hours ago by
_quantum_girl_
▴ 10
0
votes
0
replies
81
views
traying to make a maf from an already annotated vcf
vcf2maf
VEP
maftools
updated 15 hours ago by
Ram
43k • written 15 hours ago by
Javier
• 0
1
vote
4
replies
580
views
What happened to Tombo Re-squiggle
Tombo
resquiggle
ONT
updated 15 hours ago by
Ram
43k • written 3 months ago by
turcoa1
• 0
0
votes
0
replies
77
views
Pruning with plink finds a majority of SNPs in very high LD
LD
SNP
plink
pruning
15 hours ago by
enferdeflame
• 0
0
votes
0
replies
85
views
Difference when using difference number of pathways score to compare between 3 groups
GSVA
Limma
11 hours ago by
Chris
▴ 260
0
votes
0
replies
89
views
News:
Online course: Meta-analysis in R
Meta-Analysis
Statistics
R
updated 15 hours ago by
Ram
43k • written 17 hours ago by
carlopecoraro2
★ 2.5k
1
vote
9
replies
612
views
How can I retrieve wheat lysine non-acetylated sequences from the UniProt database?
UniProt
updated 17 hours ago by
Elisabeth Gasteiger
★ 2.4k • written 21 hours ago by
Jacky
• 0
0
votes
1
reply
176
views
10x VDJ (TCR/BCR) BAM to fastq
TCR
VDJ
BCR
10x
updated 18 hours ago by
GenoMax
141k • written 19 hours ago by
predeus
★ 1.9k
0
votes
1
reply
186
views
DEseq2
RNA-seq
DESeq2
updated 15 hours ago by
Ram
43k • written 20 hours ago by
rrehimi
• 0
0
votes
0
replies
90
views
News:
Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo
Individual-Based-Models
Agent-Based-Models
updated 15 hours ago by
Ram
43k • written 19 hours ago by
carlopecoraro2
★ 2.5k
4
votes
2
replies
245
views
Assume "yes" as the answer to any prompts with bioconda
docker
container
bioconda
updated 19 hours ago by
Juke34
8.5k • written 19 hours ago by
njornet
▴ 20
0
votes
0
replies
88
views
Tutorial:
DNA Methylation: Sequencing Techniques
WGBS
RRBS
19 hours ago by
Novogene
▴ 410
0
votes
1
reply
372
views
How to add rowLinks, rowTree in SummarizedExperiment manually.
phylogenetic-tree
microbiome
updated 15 hours ago by
Ram
43k • written 19 months ago by
Muhammad
• 0
3
votes
3
replies
290
views
Korean human genome reference file
GWAS
reference
imputation
1 hour ago by
SeoGyun
• 0
1
vote
4
replies
361
views
SLURM submission problem: Indexing the Reference Genome is not done in STAR
align
RNA-Seq
linux
STAR
updated 18 hours ago by
GenoMax
141k • written 21 hours ago by
n_navy
• 0
0
votes
3
replies
306
views
RNA seq differential expression analysis
RNA-seq
normalization
updated 7 hours ago by
swbarnes2
14k • written 21 hours ago by
rrehimi
• 0
0
votes
0
replies
95
views
How can I obtain the tissue or sample name alongside the Tau score in tspex?
tau-score
tspex
updated 15 hours ago by
Ram
43k • written 22 hours ago by
bioinfo223
▴ 10
0
votes
0
replies
110
views
How to root an unrooted tree with a known root tree?
phylogenetics
rooting
R
22 hours ago by
P.
• 0
0
votes
1
reply
222
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
updated 5 hours ago by
cmdcolin
★ 3.8k • written 1 day ago by
renan.igor
• 0
5
votes
4
replies
511
views
DEG analysis of RNA-seq data across multiple tissues and two conditions
RNA-seq
EdgeR
DEGs
DESeq2
10 hours ago by
BioinfGuru
★ 1.7k
0
votes
4
replies
374
views
Per base sequence content failed miserably
fastqc
sequence
trimmomatic
NGS
assembly
10 minutes ago by
Kai Xin
• 0
2
votes
3
replies
343
views
Sheep reference genome remapping coordinates
reference
remap
sheep
coordinates
genome
17 hours ago by
valentinatsar
• 0
2
votes
10
replies
587
views
Questions about a bug when transferring cram file to bam file
sequence
samtools
bcftools
updated 14 hours ago by
GenoMax
141k • written 1 day ago by
me
• 0
2
votes
2
replies
339
views
differential gene expression analysis when not all samples have an untreated counterpart
differential-expression
edgeR
14 hours ago by
nhaus
▴ 300
2
votes
7
replies
668
views
Removing duplicates
duplicates
ONT
minimap2
updated 7 hours ago by
joe
▴ 500 • written 1 day ago by
quentinperriere
• 0
3
votes
4
replies
342
views
biomaRt error for different R version
biomaRt
R
updated 18 hours ago by
GenoMax
141k • written 1 day ago by
manaswwm
▴ 490
0
votes
4
replies
415
views
How to reduce the variation of CIBERSORTx results?
CIBERSORTx
deconcolution
23 hours ago by
feather-W
• 0
0
votes
2
replies
277
views
GSEA analysis in R
GSEA
R
Arabidopsis
21 hours ago by
Sudip
• 0
0
votes
2
replies
312
views
How to add motifs in cellranger-arc reference?
gtf
scRNAseq
fasta
cellranger
updated 18 hours ago by
Ehsan
• 0 • written 8 weeks ago by
bioinfo
▴ 150
0
votes
2
replies
509
views
autodockvina
python
python3
autodock
updated 9 hours ago by
Ram
43k • written 3 months ago by
iamsmor
• 0
2
votes
4
replies
1.4k
views
How to fix Error in dat[, batch == batch_level] : (subscript) logical subscript too long when removing batch effects
microarray
combat
batch-effect
median-normalization
updated 12 hours ago by
Ram
43k • written 17 months ago by
Dominique
• 0
1
vote
9
replies
1.1k
views
Supergnova stuck in tutorial
Genetic
Correlations
Python
Supergnova
Conda
updated 19 hours ago by
Murat
• 0 • written 19 months ago by
Gerard
▴ 10
1
vote
4
replies
1.4k
views
Removing/Accounting for batch effects in unbalanced group RNAseq data
rna-seq
batch-effect
deseq
updated 12 hours ago by
Ram
43k • written 2.2 years ago by
claysandel
• 0
0
votes
4
replies
1.2k
views
Batch effects
Batch-effect
transcriptomics
updated 12 hours ago by
Ram
43k • written 2.6 years ago by
BioQueen
▴ 30
2
votes
6
replies
5.1k
views
How to avoid over-correction by using harmony or CCA to batch correction in scRNA-seq?
scRNA-seq
R
seurat
harmony
batch-effect
updated 12 hours ago by
Ram
43k • written 3.7 years ago by
Lukadon77
• 0
0
votes
0
replies
721
views
Creating a stable batch-corrected scRNA-Seq data with multiple datasets and multiple integrations
RNA-Seq
scRNA-Seq
batch-effect
updated 12 hours ago by
Ram
43k • written 3.4 years ago by
hkarakurt
▴ 180
2
votes
3
replies
1.5k
views
RNASeq - How to compare the expression of a single gene across batches
RNA-Seq
edgeR
batch-effect
updated 12 hours ago by
Ram
43k • written 3.5 years ago by
oakhamwolf
▴ 20
95 results • Page
1 of 2
Recent Votes
Bedtools merge but only if intersection exists
Answer: Korean reference file
Comment: Korean human genome reference file
C: samtools sort bam file
A: samtools sort bam file
Answer: Downloaded pdb's on rcsb.org
Comment: Downloaded pdb's on rcsb.org
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Recent Replies
Comment: Per base sequence content failed miserably
by
Kai Xin
• 0
will look into that. Thank you very much
Comment: Korean human genome reference file
by
SeoGyun
• 0
Thanks..... But I want to do imputation, so I have to make it as a vcf file, but the site only has a fatsa file....
Comment: miRNAs quantification using mirdeep2 tool
by
Ashok
• 0
thank you for your reply https://github.com/rajewsky-lab/mirdeep2/blob/master/TUTORIAL.md i saw this github tutorial for miRNA quantifica…
Comment: Load a full GFF3 into annotation track using arrow (Apollo)
by
cmdcolin
★ 3.8k
Hi there, I let a developer know of this thread and they said they can check it out next week. Feel free to post to the https://github.com/…
Comment: How to get the reference panel for UKBB
by
航太郎
• 0
Thanks for your guide!
Comment: Removing duplicates
by
joe
▴ 500
I'd try those OP @samuel recommends My guess is you're new to ONT, fast5 is the 'raw data' which is current over time...other than generat…
Comment: RNA seq differential expression analysis
by
swbarnes2
14k
No. Find a tutorial, try it, then if you have specific questions, ask of the galaxy help site.
Answer: Adding CB tag to bam file
by
swbarnes2
14k
Shouldn't you use PicardTools for this?
Comment: Downloaded pdb's on rcsb.org
by
Ram
43k
Sure. Or, one could do: bash try.bash "Homo sapiens" AHR | xargs -I v_pdb curl -s -o v_pdb.pdb https://files.rcsb.org/view/v_pdb.pdb
Comment: Downloaded pdb's on rcsb.org
by
iamsmor
• 0
thank you so much
Comment: Downloaded pdb's on rcsb.org
by
GenoMax
141k
This may be the best option. Get the PDB ID's $ ./get.sh "Mus musculus" AHR 4M4X 5NJ8 5V0L 8H77 Then use `curl` to g…
Comment: Downloaded pdb's on rcsb.org
by
Ram
43k
It gives you the first 25 results though. I'll see if I can change that. EDIT: I've updated that number to 250. I'm hoping you won't need …
Comment: Downloaded pdb's on rcsb.org
by
iamsmor
• 0
thank you very much
Answer: Downloaded pdb's on rcsb.org
by
Ram
43k
I'm going to build off of OP's query and give them a simple script: ```bash organism=$(echo $1 | sed 's/ /%20/g') gene=$2 curl -s https:/…
Comment: miRNAs quantification using mirdeep2 tool
by
GenoMax
141k
This question does not make complete sense. If you have your own data files why do you need deep sequencing reads? Genome (can be download…
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