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121,621 results • Page
1 of 2433
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Votes
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2
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1
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68
views
News:
Feedback needed on new user-friendly BED file tool
bedtools
bed
updated 4 hours ago by
GenoMax
152k • written 4 hours ago by
nadia
• 0
1
vote
3
replies
132
views
New to Bioinformatics, Phage genome investigation
prostT5
genetics
phages
bacteriophage
sphae
updated 2 hours ago by
Michael
56k • written 15 hours ago by
Hanhan2000
• 0
0
votes
1
reply
106
views
Issues for Purchasing The Biostar Handbook – Professional Edition
Biostar
handbook
updated 10 hours ago by
GenoMax
152k • written 16 hours ago by
Srijan
• 0
5
votes
6
replies
408
views
Does edgeR supports random effects?
RNASeq
voom
randomeffects
edgeR
limma
23 hours ago by
406339165
▴ 10
843
votes
170
replies
183k
views
112 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 12 weeks ago by
Biostar
3.6k • written 8.6 years ago by
Istvan Albert
102k
0
votes
1
reply
110
views
STAR alignment to small fasta file failing
seq
STAR
alignment
RNA
updated 1 day ago by
GenoMax
152k • written 1 day ago by
Annie
• 0
1
vote
4
replies
243
views
STAR aligned BAM files
genome_aligned
STAR
BAM
files
transcripts
updated 1 day ago by
Ram
45k • written 1 day ago by
rajdeepboral00
▴ 70
0
votes
1
reply
150
views
How do I generate synthetic 16S RNA gene sequences?
16S
sequence
rRNA
Infernal
augmentation
data
oversampling
cmemit
updated 1 day ago by
Mensur Dlakic
★ 29k • written 1 day ago by
Max Sikolenko
▴ 50
0
votes
0
replies
182
views
Statistical comparison of chr8 amplifications in matched primary vs metastatic WGS samples using log2 CN data
statistics
copy-number
cnvkit
updated 1 day ago by
Ram
45k • written 1 day ago by
Dalal
• 0
1
vote
1
reply
135
views
undefined chro name in vcf header
UnplacedContigs
Header
vcf
RandomContigs
1 day ago by
Mahdi&Christ
▴ 20
3
votes
1
reply
135
views
Fixing MGI Sequence Headers - FASTQ Format
fastq
mgi
updated 1 day ago by
GenoMax
152k • written 1 day ago by
joe_genome
▴ 70
0
votes
1
reply
119
views
how extract CpG methylatiuon calls from nanopore long sequencing bam file ?
bioinformatocs
updated 1 day ago by
GenoMax
152k • written 1 day ago by
reziyamaimaiti0331
• 0
1
vote
3
replies
1.8k
views
Draw a genome map with CGView server?
assembly
genome map
CGView
updated 1 day ago by
bioprodatviet
• 0 • written 6.2 years ago by
El Niño
▴ 10
0
votes
1
reply
585
views
The branch point is not labelled as expected
monocle
updated 1 day ago by
wschen97
• 0 • written 23 months ago by
Lin
• 0
10
votes
9
replies
14k
views
8 follow
Significance of the term "tile" in sequencing?
genomics
updated 1 day ago by
GenoMax
152k • written 4.3 years ago by
joe_genome
▴ 70
0
votes
2
replies
206
views
chromosome ideogram
chromosome
updated 1 day ago by
cmdcolin
★ 4.3k • written 2 days ago by
zhangmyharper
• 0
1
vote
2
replies
229
views
bin reassembly question
data
metawrap
assembly
shotgun
updated 1 day ago by
Mensur Dlakic
★ 29k • written 2 days ago by
shevch2009
▴ 20
3
votes
5
replies
285
views
What is the best way to handle "?" in the 7th column (strand) of GTF files?
fasta
STAR
ENSEMBL
GTF
RefSeq
updated 2 days ago by
GenoMax
152k • written 2 days ago by
ki
• 0
0
votes
0
replies
107
views
News:
Workshop: Virtual RNA-seq Analysis, July 29–31
RNASeq
workshop
UConn
2 days ago by
zsc25001
▴ 10
0
votes
0
replies
202
views
Problems integrating DEXSeq2 + stageR + DRIMSeq + DESeq2 for transcript group/promoter usage analysis
differential-transcript-usage
differential-gene-expression
dexseq
deseq2
drimseq
2 days ago by
LuciaNhu
▴ 10
1
vote
1
reply
172
views
how extract CpG methylatiuon calls from nanopore long sequencing bam file ?
methylation
updated 2 days ago by
Ram
45k • written 2 days ago by
reziyamaimaiti0331
• 0
0
votes
1
reply
219
views
lifting over mitochondrial SNPs between reference genomes
bcftools
liftover
hg19
picard
VCF
updated 2 days ago by
benformatics
4.1k • written 3 days ago by
112233
• 0
0
votes
2
replies
218
views
Merging segment CNV files
CNV
3 days ago by
avelarbio46
▴ 30
0
votes
1
reply
4.6k
views
convert PLINK file to genepop
SNP
genome
snp
updated 3 days ago by
Noeliton
• 0 • written 8.4 years ago by
age00
• 0
7
votes
6
replies
500
views
6 follow
How do I interpert PCA before differential expression analysis
EDA
DESeq2
PCA
QC
updated 2 days ago by
Mensur Dlakic
★ 29k • written 3 days ago by
gogeni5529
▴ 80
3
votes
6
replies
428
views
RRBS (Reduced Representation Bisulfite Sequencing)
Trim
RRBS
Galore
updated 1 day ago by
dthorbur
★ 3.0k • written 3 days ago by
sk_24
• 0
0
votes
0
replies
142
views
News:
Course - Population Genomics Using Ancient DNA Data - Online, September 22-26
PopulationGenomics
aDNA
3 days ago by
Physalia-courses
★ 2.6k
0
votes
0
replies
259
views
Repeat expansion VCF from ONT RU field and displayRU differences with gnomAD STR dataset repeat units
VCF
STRs
annotation
3 days ago by
ieie
▴ 20
39
votes
11
replies
6.1k
views
12 follow
What Are Your Most-Used Public Data Repositories?
database
updated 3 days ago by
ATpoint
88k • written 11.9 years ago by
Sean Davis
27k
5
votes
6
replies
2.3k
views
7 follow
Is there a database of bioinformatics tools & databases?
ebi
entrez
updated 3 days ago by
ehaag
▴ 90 • written 3.6 years ago by
LauferVA
4.8k
3
votes
9
replies
2.6k
views
how can I search for a new release data?
next-gen
microarray
RNA-Seq
homology-modelling
updated 3 days ago by
ehaag
▴ 90 • written 10.4 years ago by
yoingchinchina
▴ 20
0
votes
3
replies
434
views
How to trace back found motifs from homer and fimo to bed file so that visualization in genome browser
motif
updated 3 days ago by
GenoMax
152k • written 3 days ago by
EdisonJ
• 0
0
votes
0
replies
172
views
Problem at running Automlsa2
tree
phylogenetic
outgroup
selection
updated 4 days ago by
GenoMax
152k • written 4 days ago by
muhammadirfanulislambcsir
• 0
0
votes
0
replies
166
views
Comparative value conversions between fold enrichment-SHINYGO and Stringdb Score
stringdb
shinygo
4 days ago by
feliyon86
• 0
0
votes
1
reply
214
views
Output of heatmap2 tool on Galaxy
heatmap2
updated 4 days ago by
GenoMax
152k • written 4 days ago by
Stefano
• 0
1
vote
3
replies
298
views
Download data from BV-BRC
bv-brc
arm
download
bvbrc
gene
updated 4 days ago by
GenoMax
152k • written 4 days ago by
rica01
• 0
2
votes
3
replies
495
views
Splitting chromosomes into contigs within BAM and GTF files
samtools
gtf
chromosome
annotation
bam
updated 4 days ago by
rfran010
★ 1.6k • written 9 days ago by
MAB
▴ 10
0
votes
3
replies
316
views
concoct in metawrap binning module - use all available threads instead of requested
binning
concoct
metawrap
module
3 days ago by
shevch2009
▴ 20
3
votes
17
replies
959
views
Inverted TSS Enrichment Plot
ATACSeq
deeptools
1 day ago by
nmalexan
• 0
5
votes
1
reply
258
views
hg38 vs GRCh38 chr prefix
human
genome
reference
updated 4 days ago by
GenoMax
152k • written 4 days ago by
DBScan
▴ 510
2
votes
4
replies
1.7k
views
Problem using FastML for ancestral sequence reconstruction
FastML
ancestral-sequence-reconstruction
fastml.std
updated 4 days ago by
christian.baumann
▴ 10 • written 3.1 years ago by
CM
• 0
2
votes
1
reply
255
views
Too many contigs in Spades output
spades
Assembly
updated 4 days ago by
GenoMax
152k • written 4 days ago by
waqaskhokhar999
▴ 160
1
vote
3
replies
357
views
How to handle contamination in 16s amplicon data
16s
amplicon
updated 4 days ago by
GenoMax
152k • written 4 days ago by
1769mkc
★ 1.3k
3
votes
12
replies
929
views
Strandedness issues in STAR quantification
STAR
stranded
updated 4 days ago by
GenoMax
152k • written 9 days ago by
marek.gierlinski
▴ 20
7
votes
7
replies
596
views
RNA-seq low quality sample in downstream analysis
Mitochondrial
genes
RNA-seq
DESeq2
updated 2 days ago by
Aleksandra
▴ 30 • written 4 days ago by
Yingying
▴ 50
3
votes
3
replies
1.7k
views
Transcript length from ensembl database
RNA-seq
transcriptomics
updated 4 days ago by
colindaven
7.7k • written 3.5 years ago by
Dominik
• 0
0
votes
0
replies
217
views
Differential Abundance Analysis (for metagenomics)
metagenomics
differential
shotgun
analysis
5 days ago by
aerotolerant
• 0
1
vote
1
reply
283
views
Blog:
Rust in Bioinformatics monthly newsletter
newsletter
Rust
updated 4 days ago by
cmdcolin
★ 4.3k • written 5 days ago by
Andrew
▴ 10
1
vote
2
replies
334
views
Discrepancy in gene expression between cellranger and velocyto pipeline
velocyto
scvelo
seurat
scRNA
5 days ago by
sarang.chafle
• 0
5
votes
8
replies
649
views
How to solve this featureCounts problem ?
paired-end
RNA-seq
Bioinformatic
Quantification
updated 4 days ago by
ATpoint
88k • written 5 days ago by
AIMAR
▴ 70
121,621 results • Page
1 of 2433
Recent Votes
Problem with .bed file
Comment: Feedback needed on new user-friendly BED file tool
Comment: New to Bioinformatics, Phage genome investigation
Comment: Feedback needed on new user-friendly BED file tool
C: BRIG: How to use a multi fasta file as query
[Deprecated] Fast download of FASTQ files from the European Nucleotide Archive (ENA)
RNA-seq low quality sample in downstream analysis
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Popular Question
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san96
▴ 190
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Dalal
• 0
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dthorbur
★ 3.0k
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wschen97
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Recent Replies
Comment: New to Bioinformatics, Phage genome investigation
by
Michael
56k
Ok, thank you for the explanation. As I said, I am no expert in phage biology. > reading a ton of research papers and collecting specific…
Comment: New to Bioinformatics, Phage genome investigation
by
Hanhan2000
• 0
Strictly lytic phages will not have integrate or excisionase, as those are only required for the dormant lysogenic cycle. Finding their pre…
Comment: Feedback needed on new user-friendly BED file tool
by
GenoMax
152k
While new tools are always welcome (specially if they are easier to use for newcomers) you provide no links for the tool so people can try …
Comment: New to Bioinformatics, Phage genome investigation
by
Michael
56k
Finding genes by similarity in a few small genomes is an easy task in bioinformatics, but you must make sure that you are asking the right …
Comment: Issues for Purchasing The Biostar Handbook – Professional Edition
by
GenoMax
152k
You can email admin at biostars dot org with this question. Also ask your friend to check with their bank that their credit card is valid…
Comment: Download Isoform expression data from tcga
by
t.fosk
• 0
found some data here in case someone needs them in the future: https://xenabrowser.net/datapages/?cohort=TCGA%20Pan-Cancer%20(PANCAN)&rem…
Comment: Does edgeR supports random effects?
by
406339165
▴ 10
Hi all, Thank you for the helpful suggestions. In my dataset, I observed a significant effect of Sex, so I subset the data to include only…
Comment: Looking for neanderthal genomes to download
by
RD
▴ 20
Hey @severalorks, Were you able to figure it out? I'm curious how you built the consensus sequences and aligned them to human proteins. I n…
Comment: How to pull out protein sequences from from BAM files containing genomic alignme
by
RD
▴ 20
Hey @Julia92796, Were you able to figure it out? I'm curious how you built the consensus sequences and aligned them to human proteins. I no…
Comment: STAR alignment to small fasta file failing
by
GenoMax
152k
What is the length of fasta reference sequences?
Comment: Significance of the term "tile" in sequencing?
by
GenoMax
152k
What kind of sequencer is this data from?
Comment: STAR aligned BAM files
by
Ram
45k
> but it seems that i cannot directly use these BAM files in STAR. You most definitely can.
Answer: STAR aligned BAM files
by
Ram
45k
You cannot use STAR to get isoform level counts, only gene level counts and you can do that using an input BAM. For transcript level counts…
Comment: Limma model gives weird results
by
leranwangcs
▴ 150
Sorry it takes so long to come back to this. Let me refine my question: 1. The abundance table is a 2313 viral ORFs by 306 samples table, w…
Answer: How do I generate synthetic 16S RNA gene sequences?
by
Mensur Dlakic
★ 29k
Why do you need to augment 16S rRNA sequences, given that tens of millions are already available? If your main reason is sequence diversity…
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