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121,938 results • Page
138 of 2439
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
478
views
SAMstat mapping quality report MAPQ gt vs MAPQ lt
Sequencing
mapping
samstat
18 months ago by
njornet
▴ 20
3
votes
3
replies
1.0k
views
I can't add VAF from population for all of my variants from VCF file
genomics
vcf
gnomad
updated 18 months ago by
Ram
45k • written 18 months ago by
Samuel
▴ 20
2
votes
2
replies
904
views
VCF file transfer to a better genome
VCF
updated 18 months ago by
colindaven
8.0k • written 18 months ago by
Nilo
▴ 20
0
votes
7
replies
1.7k
views
Pan genome of genes
Get_homologues
updated 18 months ago by
b.contreras.moreira
▴ 490 • written 4.4 years ago by
Pedro
• 0
0
votes
1
reply
887
views
Get_Homologues
get_homologues
homologues
clusters
updated 18 months ago by
b.contreras.moreira
▴ 490 • written 24 months ago by
utkarsh.sood
▴ 40
3
votes
5
replies
1.3k
views
Tutorial for analyzing WGBS data
NGS
methylseq
WGBS
18 months ago by
pt.taklifi
▴ 70
1
vote
4
replies
875
views
Some questions about bulk RNA-seq data normalization
RNA-seq
NGS
bulk
normalize
18 months ago by
feather-W
• 0
2
votes
4
replies
1.0k
views
repeatseq compilation issues
NGS
Repeats
repeatseq
repeatexpansion
Genomics
updated 18 months ago by
Michael
56k • written 18 months ago by
adarsh
▴ 60
1
vote
1
reply
693
views
ComplexHeatmap anno_mark position changes with height of gene expression heatmap
ComplexHeatmap
17 months ago by
CTLong
▴ 140
0
votes
0
replies
433
views
compare the assembler MaSuRCA and SPAdes for assembly unmapped reads
SPAdes
unmapped_reads.
assembly.
MaSuRCA.
18 months ago by
Sony
▴ 20
1
vote
2
replies
774
views
how to run multiple bam files for CNVkit input
annotation
bam
CNVkit
18 months ago by
Dora
▴ 10
0
votes
2
replies
821
views
Stringtie error: Error: input file –e cannot be found!
RNA-seq
tuxedo
stringtie
transcriptomics
17 months ago by
menyawino
• 0
0
votes
0
replies
404
views
MG-RAST KEGG KO Search
mg-rast
kegg
metagenomics
ko
18 months ago by
Jeremy
▴ 930
4
votes
3
replies
978
views
Demonstrating lack of difference between two peaksets
DiffBind
ChIP-seq
updated 18 months ago by
LauferVA
4.8k • written 18 months ago by
Aspire
▴ 390
5
votes
6
replies
1.4k
views
biological meaning /summary for similar sets of GO terms
annotation
GO
updated 18 months ago by
Istvan Albert
103k • written 18 months ago by
lessismore
★ 1.4k
3
votes
2
replies
1.8k
views
What is the meaning of miniasm -2S6 command?
oxford-nanopore
miniasm
Assembly
updated 18 months ago by
Ram
45k • written 4.6 years ago by
traditionalGuy
▴ 60
0
votes
5
replies
1.2k
views
Same NCBI IDs for different Ensembl IDs / Multiple NCBI IDs for an Ensembl ID
KEGG
ENTREZ
ENSEMBL
18 months ago by
Maxwell
▴ 70
1
vote
9
replies
1.9k
views
Python3 or Ubuntu, not perl: Have Primers with Degenerate Bases, Need tool or way to List all Possible Nucleotide Sequences
degenerate-bases
python
primers
biopython
updated 18 months ago by
Dave Carlson
★ 2.2k • written 18 months ago by
Matthew
• 0
4
votes
4
replies
1.2k
views
Is it feasible to merge Illumina RNA-Seq data with varying read lengths?
illumina
RNA-seq
paired-end
updated 18 months ago by
i.sudbery
22k • written 18 months ago by
mathavanbioinfo
▴ 80
0
votes
0
replies
445
views
MIRA runs yielding different assemblies with same input data and parameters
MIRA
replication
denovo
assembly
18 months ago by
btc347
• 0
0
votes
1
reply
587
views
Understanding Uncommon Genotype Formats in VCF Files Generated by nf-core RNAvar Pipeline
genotype
rnaseq
updated 18 months ago by
Pierre Lindenbaum
166k • written 18 months ago by
ASid
▴ 40
1
vote
2
replies
1.5k
views
Seurat: CreateSeuratObject error, please help
Seruat
18 months ago by
mnx0723
• 0
2
votes
2
replies
1.6k
views
ggplot2 installation
ggplot2
updated 18 months ago by
rpolicastro
13k • written 18 months ago by
safeassli
▴ 10
0
votes
1
reply
589
views
How to perform enrichment p-value for a motif
Enrichment
statistics
updated 18 months ago by
Trivas
★ 1.9k • written 18 months ago by
Apex92
▴ 320
0
votes
3
replies
1.2k
views
Corset error reading input files
corset
updated 18 months ago by
Ram
45k • written 3.8 years ago by
scarey
• 0
1
vote
5
replies
803
views
Merging bam files from different runs
samtools
bam
updated 18 months ago by
GenoMax
154k • written 18 months ago by
shpak.max
▴ 60
0
votes
0
replies
354
views
edgeR paired analysis with three conditions
edgeR
18 months ago by
suraj
• 0
3
votes
0
replies
856
views
Herald:
The Biostar Herald for Monday, March 11, 2024
herald
18 months ago by
Biostar
3.6k
0
votes
5
replies
1.6k
views
Bedtools getfasta: error
getfasta
bedtools
updated 18 months ago by
GenoMax
154k • written 18 months ago by
ummeswaiba
• 0
0
votes
2
replies
881
views
RNA-seq DE with AAV injection
AAV
RNA-seq
edgeR
enrichment
updated 18 months ago by
rpolicastro
13k • written 18 months ago by
CriticalP
• 0
0
votes
1
reply
815
views
DMRcate for sequencing data
DMRcate
DNA-methylation
differential-methylation
updated 18 months ago by
Basti
★ 2.1k • written 18 months ago by
alejandrarodrigu21
• 0
0
votes
0
replies
552
views
How can I conduct a meta-analysis of RNA-seq or microarray data?
R
RNA-seq
microarray
meta-analysis
18 months ago by
wyt1995
▴ 40
3
votes
2
replies
1.2k
views
Query Name too long - samtools
samtools
updated 18 months ago by
GenoMax
154k • written 18 months ago by
marco.barr
▴ 180
0
votes
0
replies
428
views
News:
Online course: Genome Assembly and Annotation - 3 seats left
Genome-Assembly
Galaxy
Genome-Annotation
updated 18 months ago by
Ram
45k • written 18 months ago by
Physalia-courses
★ 2.6k
2
votes
1
reply
486
views
Computing the neighborhood graph in single cell pipeline
single-cell
knn
updated 18 months ago by
ATpoint
89k • written 18 months ago by
QX
▴ 80
0
votes
5
replies
1.4k
views
Is it appropriate to publish a phylogenetic tree with low basal bootstarp value
DNA
tree
phylogenetic
updated 18 months ago by
Joe
22k • written 18 months ago by
zhou03091010
• 0
3
votes
5
replies
1.4k
views
Is it necessary to sort fastq files by sequence before running variant analysis?
fastq
NGS
sort
updated 18 months ago by
GenoMax
154k • written 18 months ago by
SlowSD
• 0
0
votes
1
reply
632
views
Download all phytochemicals from IMPPAT database
Phytochemicals
docking
IMPPAT
18 months ago by
goyalsamta2609
• 0
0
votes
0
replies
397
views
How to extract particular gene(genbank) from mitochandrial genome lists (genbank)?
Genbank
18 months ago by
kuttibiotech2009
▴ 30
0
votes
1
reply
709
views
VEP fail to annotate NCBI refseq GFF
VEP
variant
18 months ago by
bharata1803
▴ 580
0
votes
0
replies
468
views
Relative abundance output from qiime2
relative-abundance
classification
qiime2
taxon
updated 18 months ago by
Ram
45k • written 18 months ago by
arunsaikirans
• 0
0
votes
2
replies
758
views
How to get genes in a gene set in msigdb?
msigdb
18 months ago by
Chris
▴ 360
1
vote
2
replies
548
views
I am trying to generate a bcf file using samtools mpileup, is this suppose to happen?
Samtools
mpileup
updated 18 months ago by
Ram
45k • written 18 months ago by
K
• 0
0
votes
3
replies
1.0k
views
Can Metal merge two GWAS Summary data even if the versions of SNP id are different?
GRCh37
GRCh38
Metal
18 months ago by
qq
• 0
0
votes
0
replies
456
views
Differentially expressed genes across condition
singlecell
18 months ago by
synat.keam
▴ 120
0
votes
4
replies
1.3k
views
What are the best HW p-value & MAF cutoffs based on my study ?
MAF
p-value
HWE
18 months ago by
mona.patoughi
• 0
2
votes
6
replies
2.1k
views
Kallisto returns 'illegal instruction' when running commands
kallisto
rna-seq
updated 18 months ago by
GenoMax
154k • written 18 months ago by
Eleanor
• 0
0
votes
0
replies
405
views
Function normalize raw microarray data for GSVA
gsva
18 months ago by
Chris
▴ 360
1
vote
2
replies
1.5k
views
I do not understand how to get total peaks from MACS2 shown to me. What mistake(s) am I making here?
ATACseq
MACS
18 months ago by
Ronin
▴ 10
0
votes
1
reply
713
views
Merging 2 VCF files using bcftools, however how should I update the fields according to 2 VCF files
Variant-calling
VCF
bcftools
updated 18 months ago by
Ram
45k • written 18 months ago by
sardana.thakur.prachi
• 0
121,938 results • Page
138 of 2439
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Comment: Linear regression vs DESeq2 models for DEG analysis
Comment: Linear regression vs DESeq2 models for DEG analysis
Answer: Linear regression vs DESeq2 models for DEG analysis
Answer: Linear regression vs DESeq2 models for DEG analysis
Answer: Linear regression vs DESeq2 models for DEG analysis
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Recent Replies
Comment: Feasibility of detecting PCR-chimeric reads with Machine Learing (ML) for organe
by
andres.firrincieli
3.9k
While there is no specific rule against the use of ChatGPT or similar, this must be clearly stated in the answer
Comment: cellranger mkref fail/error
by
Arup Ghosh
3.4k
As you managed to run each organism separately successfully. Does the combined size of the FASTA files exceed the amount of memory you spec…
Comment: different methods target identification
by
ATpoint
89k
Oh come on... https://www.biostars.org/p/75548/ https://www.biostars.org/p/357878/
Answer: Feasibility of detecting PCR-chimeric reads with Machine Learing (ML) for organe
by
teamardigen
• 0
Your idea is definitely feasible on Illumina reads. Since curated chimera datasets are rare, most people simulate them in silico (concatena…
Comment: Linear regression vs DESeq2 models for DEG analysis
by
ATpoint
89k
+1 Your answer should be the top-voted answer in this thread https://www.biostars.org/p/284775/ as it actually addresses conceptual diffe…
Comment: Linear regression vs DESeq2 models for DEG analysis
by
swbarnes2
15k
It is not clear to me that you can meaningfully correct for 5 different batches with two samples a piece.
Comment: Does this adapter content from fastqc to warrant trimming prior to alignment?
by
GenoMax
154k
> I am not sure if there would be primer dimer sequences I should have said adapter dimers above. Correction made.
Comment: Help understanding this per base sequence content failure fastqc plot
by
lieven.sterck
15k
that 151st base added is a base to ignore (it's a kind of random addition) ... if I recall correctly it's a consequence of the technology. …
Comment: Linear regression vs DESeq2 models for DEG analysis
by
FioG
• 0
@swbarnes2 Thank you for your response! I am new to RNA seq analysis and was originally recommended to use the LM method following cqn and …
Comment: Does this adapter content from fastqc to warrant trimming prior to alignment?
by
curious
▴ 890
Thank you, the adapter sequences are specified as CTGTCTCTTATACACATCT+ATGTGTATAAGAGACA is the SampleSheet.csv file from the sequencing run.…
Comment: how to explain the sample size discrepancy in UCSC Xena
by
nuorain
▴ 40
Thank you very much.
Answer: how to explain the sample size discrepancy in UCSC Xena
by
i.sudbery
22k
Because there wasn't RNA-seq analysis performed for every sample in TCGA?
Answer: Linear regression vs DESeq2 models for DEG analysis
by
i.sudbery
22k
There are two main problems with using linear models for read-count based analyses. Firstly, linear models assume a normal distribution…
Comment: real time PCR data analysis
by
ATpoint
89k
I cannot guide on GraphPad. It's commercial software so better contact their support.
Answer: Linear regression vs DESeq2 models for DEG analysis
by
swbarnes2
15k
DE genes in bulk RNASeq is what DESeq2 was made for, so why wouldn't you use it? RPKM is not an appropriate normalization method here. M…
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