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116,477 results • Page
1 of 2330
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Votes
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1
vote
1
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201
views
Plink merge errors.
cygwin64
bed
PLINK
21 minutes ago by
Dinmukhamed
• 0
0
votes
0
replies
13
views
Conversion to tree format
PLINK
Figtree
file
.bed
SplitsTree
22 minutes ago by
Dinmukhamed
• 0
0
votes
0
replies
32
views
miRDeep2: How to get the read counts
mirdeep2
2 hours ago by
Atul K.
• 0
1
vote
2
replies
253
views
Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (without Blat)
mapping
updated 4 hours ago by
Pierre Lindenbaum
161k • written 15 hours ago by
rahu
• 0
0
votes
0
replies
57
views
Lncipedia GTF file error
Proteomics
Bioinformatics
4 hours ago by
atharvakarkare14
▴ 10
7
votes
3
replies
2.6k
views
Tutorial:
Prediction of Ribosomal RNA Genes Using RNAmmer Software
Annotation
rRNA
RNAmmer
Genome
updated 4 hours ago by
colindaven
6.3k • written 15 months ago by
Dr.Animo
▴ 130
795
votes
167
replies
141k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 12 weeks ago by
Biostar
2.6k • written 7.4 years ago by
Istvan Albert
100k
2
votes
1
reply
137
views
Free/open source 23andme-like analysis
NGS
SNPs
genomics
VCF
updated 3 hours ago by
Michael
54k • written 8 hours ago by
joe
▴ 510
0
votes
2
replies
358
views
How to get the reference panel for UKBB
UKBB
GWAS
clump
11 hours ago by
航太郎
• 0
0
votes
2
replies
217
views
Adding CB tag to bam file
samtools
bam
3 hours ago by
Maria
• 0
11
votes
12
replies
712
views
Downloaded pdb's on rcsb.org
rcsb
pdb
updated 13 hours ago by
Ram
43k • written 19 hours ago by
iamsmor
• 0
0
votes
0
replies
88
views
create genewise sync file in popoolation
popoolation
updated 15 hours ago by
GenoMax
141k • written 16 hours ago by
N.Y.Wiyana-Hewage
• 0
0
votes
2
replies
225
views
python file for coding potential calculator
cpc2.py
8 hours ago by
Ashok
• 0
0
votes
2
replies
218
views
error in coding potential calculator CPC2
cpc
CPC2
coding-potential
8 hours ago by
Ashok
• 0
0
votes
2
replies
241
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
6 hours ago by
Ashok
• 0
5
votes
2
replies
329
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
updated 20 hours ago by
shelkmike
★ 1.2k • written 1 day ago by
kirillkirilenko
▴ 40
0
votes
0
replies
93
views
Variant Generation Using Longshot
long-reads
variant-calling
ONT
minion
longshot
updated 20 hours ago by
Ram
43k • written 20 hours ago by
samuelkalandarov2002
• 0
1
vote
1
reply
249
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
20 hours ago by
otieno43
▴ 30
0
votes
1
reply
173
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
updated 20 hours ago by
Ram
43k • written 20 hours ago by
_quantum_girl_
▴ 10
0
votes
0
replies
100
views
traying to make a maf from an already annotated vcf
vcf2maf
VEP
maftools
updated 21 hours ago by
Ram
43k • written 21 hours ago by
Javier
• 0
1
vote
4
replies
589
views
What happened to Tombo Re-squiggle
Tombo
resquiggle
ONT
updated 21 hours ago by
Ram
43k • written 3 months ago by
turcoa1
• 0
0
votes
0
replies
93
views
Pruning with plink finds a majority of SNPs in very high LD
LD
SNP
plink
pruning
21 hours ago by
enferdeflame
• 0
0
votes
0
replies
100
views
Difference when using difference number of pathways score to compare between 3 groups
GSVA
Limma
17 hours ago by
Chris
▴ 260
0
votes
0
replies
106
views
News:
Online course: Meta-analysis in R
Meta-Analysis
Statistics
R
updated 21 hours ago by
Ram
43k • written 23 hours ago by
carlopecoraro2
★ 2.5k
1
vote
9
replies
635
views
How can I retrieve wheat lysine non-acetylated sequences from the UniProt database?
UniProt
updated 23 hours ago by
Elisabeth Gasteiger
★ 2.4k • written 1 day ago by
Jacky
• 0
0
votes
1
reply
188
views
10x VDJ (TCR/BCR) BAM to fastq
TCR
VDJ
BCR
10x
updated 23 hours ago by
GenoMax
141k • written 1 day ago by
predeus
★ 1.9k
0
votes
1
reply
204
views
DEseq2
RNA-seq
DESeq2
updated 21 hours ago by
Ram
43k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
106
views
News:
Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo
Individual-Based-Models
Agent-Based-Models
updated 21 hours ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
4
votes
2
replies
264
views
Assume "yes" as the answer to any prompts with bioconda
docker
container
bioconda
updated 1 day ago by
Juke34
8.5k • written 1 day ago by
njornet
▴ 20
1
vote
0
replies
108
views
Tutorial:
DNA Methylation: Sequencing Techniques
WGBS
RRBS
1 day ago by
Novogene
▴ 420
0
votes
1
reply
379
views
How to add rowLinks, rowTree in SummarizedExperiment manually.
phylogenetic-tree
microbiome
updated 21 hours ago by
Ram
43k • written 19 months ago by
Muhammad
• 0
3
votes
3
replies
368
views
Korean human genome reference file
GWAS
reference
imputation
7 hours ago by
SeoGyun
• 0
3
votes
4
replies
383
views
SLURM submission problem: Indexing the Reference Genome is not done in STAR
align
RNA-Seq
linux
STAR
updated 23 hours ago by
GenoMax
141k • written 1 day ago by
n_navy
• 0
0
votes
3
replies
341
views
RNA seq differential expression analysis
RNA-seq
normalization
updated 13 hours ago by
swbarnes2
14k • written 1 day ago by
rrehimi
• 0
0
votes
0
replies
108
views
How can I obtain the tissue or sample name alongside the Tau score in tspex?
tau-score
tspex
updated 21 hours ago by
Ram
43k • written 1 day ago by
bioinfo223
▴ 10
0
votes
0
replies
123
views
How to root an unrooted tree with a known root tree?
phylogenetics
rooting
R
1 day ago by
P.
• 0
0
votes
0
replies
124
views
Issues with SnpEff Assuming Circular Chromosomes in Eukaryotic Genome Analysis
snpEff
1 day ago by
ekirsch
• 0
0
votes
1
reply
257
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
updated 11 hours ago by
cmdcolin
★ 3.8k • written 1 day ago by
renan.igor
• 0
1
vote
1
reply
212
views
Pediococcus acidilactici sequence analysis
BLAST
Gene-Ontology
updated 1 day ago by
Ram
43k • written 1 day ago by
anasjamshed
▴ 120
3
votes
1
reply
570
views
What is the normalization status of metabric data?
metabric
normalization
microarray
cbioportal
updated 1 day ago by
etiennedanis
▴ 20 • written 19 months ago by
DareDevil
★ 4.3k
0
votes
0
replies
129
views
filter the most significant ligand and receptors in netVisual_bubble in cell chat
cellchat
1 day ago by
synat.keam
▴ 100
0
votes
1
reply
218
views
assembly using CCS, CLR, CCS_CLR sequences together?
assembly
updated 1 day ago by
GenoMax
141k • written 1 day ago by
ycts
• 0
5
votes
4
replies
538
views
DEG analysis of RNA-seq data across multiple tissues and two conditions
RNA-seq
EdgeR
DEGs
DESeq2
16 hours ago by
BioinfGuru
★ 1.7k
1
vote
1
reply
240
views
Inconsistency in SNP detection pipelines for multi-sample analysis
vcf
bam
bcf
snps
updated 1 day ago by
LChart
3.9k • written 1 day ago by
George
▴ 10
0
votes
4
replies
456
views
Per base sequence content failed miserably
fastqc
sequence
trimmomatic
NGS
assembly
5 hours ago by
Kai Xin
• 0
1
vote
1
reply
194
views
Retrieve a % coverage for each transcript
RNA-seq
updated 1 day ago by
Ram
43k • written 1 day ago by
jammydodger123456
▴ 40
0
votes
1
reply
313
views
Pruning Phylogenetic Trees and Bootstrap Values
phylogenetics
bootstrap
updated 1 day ago by
Klaus S
▴ 150 • written 7 days ago by
Zeng Hao
▴ 40
0
votes
2
replies
312
views
How can I solve this error?
metal
1 day ago by
22211020193
• 0
0
votes
0
replies
136
views
Struggling to lift genome builds
PLINK
liftover
GWAS
updated 1 day ago by
GenoMax
141k • written 1 day ago by
srimmer
• 0
1
vote
2
replies
234
views
Can I readmap short reads to rDNA references?
rDNA
assembly
updated 1 day ago by
Ram
43k • written 1 day ago by
aniigodwinn
• 0
116,477 results • Page
1 of 2330
Recent Votes
Comment: Editing Human Reference Genome by adding a CDS
Answer: Plink merge errors.
Gene Set Enrichment Analysis
Gene Set Enrichment Analysis
A: Counting Number Of Bases In A Fastq File
Free/open source 23andme-like analysis
Comment: Free/open source 23andme-like analysis
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Popular Question
to
i.sudbery
19k
Popular Question
to
biwdpang
• 0
Popular Question
to
Michael
54k
Scholar
to
Gordon Smyth
★ 7.0k
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yueli7
▴ 250
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Chirag Parsania
★ 2.0k
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LChart
3.9k
Recent Replies
Answer: Plink merge errors.
by
Dinmukhamed
• 0
I found answer https://www.biostars.org/p/101191/.
Comment: Ciriquant not configuring hisat2 indexed files
by
Atul K.
• 0
it worked. Thank you. Now my terminal is crashing, seems 16gb of RAM and 4 cores isn't enough. Can you suggest something?
Comment: Adding CB tag to bam file
by
Maria
• 0
I checked Picard ```AddOrReplaceReadsGroups``` and ```AddOATag```. Is that what you're referring to?
Comment: Free/open source 23andme-like analysis
by
Michael
54k
Noted that 'accurate' wasn't among your criteria ;) Anyway, most variant callers are free open-source software. However, for ancestry ana…
Answer: Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (wi
by
Pierre Lindenbaum
161k
> server so I cannot use Blat for this purpose. blat is avilable as a standane tool: http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86…
Answer: Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (wi
by
b.contreras.moreira
▴ 160
My favourite for this task would be [GMAP]( http://research-pub.gene.com/gmap ), which can produce GFF format with option `-f 2`. It is…
Answer: Prediction of Ribosomal RNA Genes Using RNAmmer Software
by
colindaven
6.3k
Another alternative is the truly free implementation barrnap https://github.com/tseemann/barrnap. This is also installable via conda so qui…
Comment: Filtration Of Reads With Length Lower Than 30 From Bam
by
Hagen
▴ 10
thanks! This saved me quite some time, I was about to write code to calculate the aligned length from the CIGAR. But this can be done with …
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
▴ 510
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.
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