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116,473 results • Page
1 of 2330
Sort: Rank
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0
votes
0
replies
2
views
Adding CB tag to bam file
bam
tag
2 minutes ago by
Maria
• 0
9
votes
10
replies
201
views
Downloaded pdb's on rcsb.org
rcsb
pdb
updated 9 minutes ago by
GenoMax
141k • written 4 hours ago by
iamsmor
• 0
0
votes
0
replies
17
views
Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (without Blat)
mapping
32 minutes ago by
rahu
• 0
0
votes
0
replies
25
views
create genewise sync file in popoolation
popoolation
updated 25 minutes ago by
GenoMax
141k • written 1 hour ago by
N.Y.Wiyana-Hewage
• 0
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
0
votes
2
replies
82
views
python file for cpc2
cpc2.py
updated 1 hour ago by
Ram
43k • written 2 hours ago by
Ashok
• 0
0
votes
2
replies
68
views
error in CPC2
cpc
CPC2
coding-potential
updated 1 hour ago by
Ram
43k • written 2 hours ago by
Ashok
• 0
0
votes
1
reply
40
views
miRNAs quantification using mirdeep2 tool
differential-expression
mirdeep2
miRNA
updated 20 minutes ago by
GenoMax
141k • written 2 hours ago by
Ashok
• 0
2
votes
2
replies
248
views
How to compare the quality of assemblies
nextdenovo
assembly
hifiasm
pacbio
updated 5 hours ago by
shelkmike
★ 1.2k • written 13 hours ago by
kirillkirilenko
▴ 30
0
votes
0
replies
50
views
Variant Generation Using Longshot
long-reads
variant-calling
ONT
minion
longshot
updated 5 hours ago by
Ram
43k • written 5 hours ago by
samuelkalandarov2002
• 0
1
vote
1
reply
202
views
Problem with Mirdeep2 and Randfold output
mirdeep2
Randfold
6 hours ago by
otieno43
▴ 30
0
votes
1
reply
112
views
QC exclusion of A/T or G/C alleles to avoid strand issues
quality-control
SNV
QC
SNP
updated 5 hours ago by
Ram
43k • written 6 hours ago by
_quantum_girl_
▴ 10
0
votes
0
replies
52
views
traying to make a maf from an already annotated vcf
vcf2maf
VEP
maftools
updated 6 hours ago by
Ram
43k • written 6 hours ago by
Javier
• 0
1
vote
4
replies
552
views
What happened to Tombo Re-squiggle
Tombo
resquiggle
ONT
updated 6 hours ago by
Ram
43k • written 3 months ago by
turcoa1
• 0
0
votes
0
replies
52
views
Pruning with plink finds a majority of SNPs in very high LD
LD
SNP
plink
pruning
6 hours ago by
enferdeflame
• 0
0
votes
0
replies
58
views
Difference when using difference number of pathways score to compare between 3 groups
GSVA
Limma
2 hours ago by
Chris
▴ 260
0
votes
0
replies
63
views
News:
Online course: Meta-analysis in R
Meta-Analysis
Statistics
R
updated 6 hours ago by
Ram
43k • written 8 hours ago by
carlopecoraro2
★ 2.5k
1
vote
9
replies
560
views
How can I retrieve wheat lysine non-acetylated sequences from the UniProt database?
UniProt
updated 8 hours ago by
Elisabeth Gasteiger
★ 2.4k • written 12 hours ago by
Jacky
• 0
0
votes
1
reply
147
views
10x VDJ (TCR/BCR) BAM to fastq
TCR
VDJ
BCR
10x
updated 9 hours ago by
GenoMax
141k • written 11 hours ago by
predeus
★ 1.9k
0
votes
1
reply
154
views
DEseq2
RNA-seq
DESeq2
updated 6 hours ago by
Ram
43k • written 12 hours ago by
rrehimi
• 0
0
votes
0
replies
65
views
News:
Course - Agent-Based Modelling Using NetLogo - University of Lodz, Poland
Netlogo
Individual-Based-Models
Agent-Based-Models
updated 6 hours ago by
Ram
43k • written 10 hours ago by
carlopecoraro2
★ 2.5k
4
votes
2
replies
216
views
Assume "yes" as the answer to any prompts with bioconda
docker
container
bioconda
updated 10 hours ago by
Juke34
8.5k • written 11 hours ago by
njornet
▴ 20
0
votes
0
replies
68
views
Tutorial:
DNA Methylation: Sequencing Techniques
WGBS
RRBS
11 hours ago by
Novogene
▴ 410
0
votes
1
reply
357
views
How to add rowLinks, rowTree in SummarizedExperiment manually.
phylogenetic-tree
microbiome
updated 7 hours ago by
Ram
43k • written 19 months ago by
Muhammad
• 0
1
vote
2
replies
218
views
Korean human genome reference file
GWAS
reference
imputation
updated 9 hours ago by
GenoMax
141k • written 13 hours ago by
SeoGyun
• 0
1
vote
4
replies
321
views
SLURM submission problem: Indexing the Reference Genome is not done in STAR
align
RNA-Seq
linux
STAR
updated 9 hours ago by
GenoMax
141k • written 13 hours ago by
n_navy
• 0
0
votes
2
replies
198
views
RNA seq differential expression analysis
RNA-seq
normalization
updated 6 hours ago by
Ram
43k • written 12 hours ago by
rrehimi
• 0
0
votes
0
replies
73
views
How can I obtain the tissue or sample name alongside the Tau score in tspex?
tau-score
tspex
updated 7 hours ago by
Ram
43k • written 13 hours ago by
bioinfo223
▴ 10
0
votes
0
replies
82
views
How to root an unrooted tree with a known root tree?
phylogenetics
rooting
R
13 hours ago by
P.
• 0
0
votes
0
replies
87
views
Issues with SnpEff Assuming Circular Chromosomes in Eukaryotic Genome Analysis
snpEff
16 hours ago by
ekirsch
• 0
0
votes
0
replies
118
views
Load a full GFF3 into annotation track using arrow (Apollo)
arrow
python-apollo
Apollo
20 hours ago by
renan.igor
• 0
1
vote
1
reply
178
views
Pediococcus acidilactici sequence analysis
BLAST
Gene-Ontology
updated 16 hours ago by
Ram
43k • written 22 hours ago by
anasjamshed
▴ 120
3
votes
1
reply
551
views
What is the normalization status of metabric data?
metabric
normalization
microarray
cbioportal
updated 21 hours ago by
etiennedanis
▴ 20 • written 19 months ago by
DareDevil
★ 4.3k
0
votes
0
replies
103
views
filter the most significant ligand and receptors in netVisual_bubble in cell chat
cellchat
22 hours ago by
synat.keam
▴ 100
0
votes
1
reply
193
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
422
views
DEG analysis of RNA-seq data across multiple tissues and two conditions
RNA-seq
EdgeR
DEGs
DESeq2
1 hour ago by
BioinfGuru
★ 1.7k
1
vote
1
reply
219
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
3
replies
323
views
Per base sequence content failed miserably
fastqc
sequence
trimmomatic
NGS
assembly
updated 3 hours ago by
GenoMax
141k • written 1 day ago by
Kai Xin
• 0
1
vote
1
reply
178
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
300
views
Pruning Phylogenetic Trees and Bootstrap Values
phylogenetics
bootstrap
updated 1 day ago by
Klaus S
▴ 150 • written 6 days ago by
Zeng Hao
▴ 40
0
votes
2
replies
278
views
How can I solve this error?
metal
18 hours ago by
22211020193
• 0
0
votes
0
replies
113
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
217
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
2
votes
3
replies
314
views
Sheep reference genome remapping coordinates
reference
remap
sheep
coordinates
genome
8 hours ago by
valentinatsar
• 0
1
vote
3
replies
225
views
Editing Human Reference Genome by adding a CDS
gff
agat
transcriptome
updated 1 day ago by
Michael
54k • written 1 day ago by
LDT
▴ 330
2
votes
10
replies
544
views
Questions about a bug when transferring cram file to bam file
sequence
samtools
bcftools
updated 6 hours ago by
GenoMax
141k • written 1 day ago by
me
• 0
2
votes
2
replies
318
views
differential gene expression analysis when not all samples have an untreated counterpart
differential-expression
edgeR
5 hours ago by
nhaus
▴ 300
0
votes
0
replies
212
views
Looking for an explanation as to what the Peak Score is from HOMER, not finding any answers on Biostars yet
Homer
ATAC-seq
1 day ago by
Ronin
• 0
4
votes
2
replies
1.7k
views
How to convert SAM/BAM file to GTF/GFF file?
GTF
SAM
BAM
GFF
minimap2
updated 1 day ago by
Dr.Animo
▴ 130 • written 11 months ago by
BioinfoBee
• 0
2
votes
6
replies
569
views
Removing duplicates
duplicates
ONT
minimap2
13 hours ago by
quentinperriere
• 0
116,473 results • Page
1 of 2330
Recent Votes
Comment: Downloaded pdb's on rcsb.org
Comment: Downloaded pdb's on rcsb.org
Comment: Downloaded pdb's on rcsb.org
Comment: Downloaded pdb's on rcsb.org
Comment: Downloaded pdb's on rcsb.org
Comment: Downloaded pdb's on rcsb.org
Comment: Downloaded pdb's on rcsb.org
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Recent Replies
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 m…
Comment: Downloaded pdb's on rcsb.org
by
iamsmor
• 0
thank you very much
Comment: 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…
Comment: Downloaded pdb's on rcsb.org
by
iamsmor
• 0
unfortunately non -programmer is sad :(
Comment: Downloaded pdb's on rcsb.org
by
GenoMax
141k
For a non-programmer using the search builder link included above may be the best option. Even that is not very user friendly.
Comment: Downloaded pdb's on rcsb.org
by
Ram
43k
That's how they seem to have written their query - automating that is a bit of a pain though as it takes a crazy JSON as input.
Comment: Downloaded pdb's on rcsb.org
by
GenoMax
141k
You can use the "Advanced query" builder (https://www.rcsb.org/search/advanced ) to create a query like: https://www.rcsb.org/search?requ…
Comment: Downloaded pdb's on rcsb.org
by
Ram
43k
PDB has a search API: https://search.rcsb.org/#search-example-1 Here's the JSON from your search query: ``` { "query": { "type": "grou…
Comment: Downloaded pdb's on rcsb.org
by
iamsmor
• 0
Thank you very much. Actually I looked at there, but actually I want to find something like according to search url like this [QUERY: Gene …
Comment: DEG analysis of RNA-seq data across multiple tissues and two conditions
by
BioinfGuru
★ 1.7k
great guidance ... thank you
Comment: error in CPC2
by
Ram
43k
Ashok, what is CPC2? Please edit your post and add as much context as you can.
Comment: python file for cpc2
by
Ram
43k
Ashok - someone else had to (guess and) add context to your post. Please give us as much information as you can in the first place - we can…
Comment: python file for cpc2
by
Pierre Lindenbaum
161k
https://academic.oup.com/nar/article/45/W1/W12/3831091 > CPC2: a fast and accurate coding potential calculator based on sequence intrinsic…
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