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1,000 results • Page
4 of 20
Sort: Votes
Rank
Views
Votes
Replies
4
votes
6
replies
2.7k
views
Convert Nanopore Fast5 files to Fasta format
fast5
fasta
Nanopore
11 months ago by
Sowmya Pulapet
▴ 70
4
votes
4
replies
3.3k
views
Unable to install Autogrid4
autogrid
software-error
autogrid4
updated 12 months ago by
Ram
43k • written 3.2 years ago by
roybatty269
• 0
4
votes
6
replies
362
views
Protein loops
protein
Loop
8 weeks ago by
Curious
▴ 10
4
votes
8
replies
2.0k
views
How to extract promoter sequences from a plant draft genome?
promoter
genome
updated 11 months ago by
Ram
43k • written 4.7 years ago by
Kumar
▴ 120
4
votes
7
replies
2.7k
views
low bootstrap value?
phylogeny
genome
alignment
updated 11 months ago by
Ram
43k • written 4.9 years ago by
Kumar
▴ 120
4
votes
8
replies
1.2k
views
Error executing nf-core/metaboigniter pipeline
nf-core
metaboigniter
nextflow
updated 8 months ago by
Phil Ewels
★ 1.4k • written 8 months ago by
eesha28112001
• 0
4
votes
2
replies
261
views
Trying to write bwa mem -> samtools view -> samtools sort loop
bwa
samtools
mapping
genome
updated 5 weeks ago by
Pierre Lindenbaum
161k • written 5 weeks ago by
Lee
• 0
4
votes
5
replies
1.4k
views
Distributed / parallel computing in bioinformatics
distributed-computing
updated 12 months ago by
Ram
43k • written 6.9 years ago by
CY
▴ 750
4
votes
5
replies
799
views
Does adding reads cause batch effects?
kallisto
RNAseq
11 months ago by
bioinfo
▴ 150
4
votes
12
replies
7.8k
views
6 follow
BWA error: no ID within the read group line
bwa
readgroups
RG
parallel
updated 3 months ago by
mgdrnl
▴ 10 • written 3.4 years ago by
whb
▴ 60
4
votes
9
replies
1.3k
views
Snakemake issue with wrappers
Python
Snakemake
6 months ago by
Begonia_pavonina
▴ 150
4
votes
9
replies
612
views
variant calling
variant-calling
updated 5 weeks ago by
Ram
43k • written 5 weeks ago by
dalibenam64
• 0
4
votes
6
replies
1.9k
views
Failure in installing the ggtree, enrichplot, and ggtree (Bioconductor packages )
Bioconductor
updated 10 months ago by
GenoMax
142k • written 10 months ago by
applepie
• 0
4
votes
6
replies
824
views
how to plot SV(structural variants) from many assemblies of a given locus
SV
12 months ago by
natalev
▴ 20
4
votes
6
replies
3.8k
views
How to interpret DEXseq results in therms of significance
DEXseq
RNA-Seq
exon
updated 7 days ago by
Sara
▴ 30 • written 6.7 years ago by
Lila M
★ 1.2k
4
votes
5
replies
405
views
Filter out miRNA from ncRNA dataset
bowtie
bowtie2
miRNA
filtering
ncRNA
updated 11 weeks ago by
ATpoint
82k • written 12 weeks ago by
binaryCode
▴ 10
4
votes
5
replies
548
views
Which refseq_protein db to choose for zingiberaceae
local
blastp
blast
updated 9 months ago by
GenoMax
142k • written 9 months ago by
Nilo
• 0
4
votes
7
replies
818
views
Help with weighted nearest neighbor analysis
seurat
single-cell
8 months ago by
Chris
▴ 280
4
votes
4
replies
380
views
Average expression of a sample in single-cell data
single-cell
rna-seq
5 weeks ago by
newuser2024
• 0
4
votes
5
replies
2.4k
views
Merge CNVnator output of multiple samples
CNV
WGS
updated 10 months ago by
Ram
43k • written 6.7 years ago by
zhang248
▴ 40
4
votes
7
replies
633
views
Can any JBrowse2 tracks show multiple colors for reads at different nucleotide positions?
JBrowse
JBrowse2
updated 6 weeks ago by
cmdcolin
★ 3.8k • written 6 weeks ago by
I0110
▴ 140
3
votes
4
replies
484
views
Discrepancy between the downloaded clinvar, dbNSFP and website
dbnsfp
clinvar
updated 5 months ago by
Ram
43k • written 5 months ago by
MAPK2
▴ 40
3
votes
3
replies
516
views
Need Control Gene Count Files
R
RNA-Seq
TCGA
updated 6 months ago by
SHXVRR
▴ 20 • written 6 months ago by
Ozymandeus
▴ 30
3
votes
8
replies
649
views
Huge decrease of BUS records using bustools
single-cell
bustools
10X
11 weeks ago by
julien.wollbrett
• 0
3
votes
7
replies
512
views
Snakemake rule that runs an assessment for once after completing other previous rules
snakemake
9 weeks ago by
Fadlilah
▴ 10
3
votes
3
replies
614
views
How do mRNASeq, BulkRNASeq, and TotalRNASeq differ in terms of workflow?
RNA-Seq
updated 7 months ago by
Ram
43k • written 7 months ago by
manish.nu
• 0
3
votes
6
replies
2.1k
views
Biopython TimeExceptionError how to handle?
biopython
entrez
updated 12 months ago by
Ram
43k • written 6.5 years ago by
Xylanaser
▴ 80
3
votes
7
replies
382
views
FastQC Quality per tile and per sequence behaving strange after using Cutadapt
fastqc
cutadapt
illumina
tile
paired-end
14 days ago by
salias
• 0
3
votes
9
replies
998
views
Estimate sizes of repeats in a especific Gene
CGG
Fragile-X
12 months ago by
Rafael
▴ 10
3
votes
4
replies
4.4k
views
Atypical volcano plot RNA-seq
volcano-plot
RNA-seq
deseq2
updated 8 months ago by
Ram
43k • written 5.5 years ago by
Teresa
▴ 20
3
votes
6
replies
1.1k
views
Very different QUAL scores on VCFs of same sample using different methods
deepvariant
clara-parabricks
haplotypecaller
vcf
10 months ago by
Victor
▴ 10
3
votes
3
replies
820
views
When counting ASVs in DADA2, does a hit/count only occur at 100% alignment percent identity?
metagenomics
qiime2
amplicon
16s
dada2
updated 9 months ago by
andres.firrincieli
3.6k • written 9 months ago by
O.rka
▴ 720
3
votes
16
replies
12k
views
combining z-scores into a single z-score value
excel
R
statistics
updated 11 months ago by
Ram
43k • written 5.2 years ago by
Star
▴ 60
3
votes
6
replies
3.3k
views
samtools sort not working when using multiple threads
samtools
bam
updated 11 months ago by
Ram
43k • written 2.3 years ago by
bio_elle
▴ 10
3
votes
6
replies
767
views
No genes mapped in clusterprofiler gseGO
R
clusterProfiler
gseGO
GSEA
4 months ago by
jon50250
• 0
3
votes
3
replies
347
views
learning bioinformatics
course
learning
updated 3 months ago by
Ram
43k • written 3 months ago by
sevda
• 0
3
votes
6
replies
4.1k
views
how do Differential gene expression analysis by Salmon output
differential-gene-expression
Salmon
updated 4 weeks ago by
Ram
43k • written 5.6 years ago by
lkianmehr
▴ 100
3
votes
7
replies
6.4k
views
Human reference files in HG38 GATK resource bundle
VCF
updated 11 months ago by
DareDevil
★ 4.3k • written 6.3 years ago by
win
▴ 980
3
votes
4
replies
3.5k
views
any recommended tools for batch effect and normalization not written in R?
R
RNA-Seq
combat
python
batch-effect
updated 25 days ago by
Ram
43k • written 7.1 years ago by
dyollluap
▴ 310
3
votes
9
replies
810
views
Understanding this analysis pipeline
reads
updated 10 months ago by
Ram
43k • written 10 months ago by
artemchuki
• 0
3
votes
5
replies
550
views
How to assess the quality of the assembly of unmapped reads ?
Pangenome
Iterative-assembly
3 months ago by
Sony
▴ 10
3
votes
2
replies
432
views
Converting STAR Gene-level alignment to TPM expression
RNA-seq
updated 6 months ago by
ATpoint
82k • written 6 months ago by
CTLong
▴ 110
3
votes
3
replies
545
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
updated 24 days ago by
swbarnes2
14k • written 25 days ago by
noodle
▴ 580
3
votes
6
replies
986
views
Embryo transcriptome
database
transcriptome
SRA
updated 11 months ago by
Basti
★ 2.0k • written 11 months ago by
firefox91
• 0
3
votes
7
replies
6.3k
views
running trimmomatic inside Trinity
Assembly
Trinity
RNA-seq
trimmomatic
updated 10 months ago by
Ram
43k • written 8.1 years ago by
lay_0
▴ 50
3
votes
5
replies
1.1k
views
Neither pysam nor samtools reading HTTPS-sourced BAM file correctly
bam
pysam
samtools
updated 8 months ago by
Istvan Albert
100k • written 8 months ago by
Alex Reynolds
35k
3
votes
4
replies
404
views
What can cause broken read-pairs (chimeric read-pairs) in a sequencing run?
QC
3 months ago by
William
★ 5.3k
3
votes
2
replies
280
views
Gene reads all zero for each sample
R
salmon
DE
DESeq2
6 weeks ago by
DYLAN NICO
• 0
3
votes
2
replies
320
views
Seeking Guidance on How to Annotate Unusual Cell Populations in Single-Cell Data
Transcriptomics
Single-Cell
updated 5 weeks ago by
Ram
43k • written 10 weeks ago by
Daddy
▴ 20
3
votes
4
replies
1.1k
views
Ballgown DE analysis
R
ballgown
Differential-expression
updated 8 months ago by
Ram
43k • written 2.3 years ago by
iamsmor
• 0
1,000 results • Page
4 of 20
Recent Votes
Comment: Help with IGV abbreviation
A: How to get read counts on transcript level using featurecounts?
Answer: Vcf file sorting
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Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred
A: How can I convert -log10 (p-value) to p-value?
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Recent Replies
Comment: How to access GWAVA software of data
by
GenoMax
142k
Please email the author (grsr at ebi.ac.uk) and let them know that the link above is not available.
Comment: CNVKIT - unable to produce scatter and diagram pdfs
by
Anitha
• 0
The normal samples is pooled into single reference for cohort. In this I have a doubt, here the normal sample referred as sample which took…
Comment: CNVkit for somatic copy number detection
by
Anitha
• 0
The normal samples is pooled into single reference for cohort. In this I have a doubt, here the normal sample referred as sample which took…
Comment: CNVkit for somatic copy number detection
by
Anitha
• 0
The normal samples is pooled into single reference for cohort. In this I have a doubt, here the normal sample referred as sample which took…
Answer: Overlapping Ranges within Granges object
by
ATpoint
82k
There is no one-hit function in GenomicRanges, but you can stick something together using a combination of `findOverlaps` to first find ove…
Comment: Galaxy StringTie error
by
trkfs
• 0
Hi, I did not encounter any " \ - " characters in the fastq input files, and it doesn't seem to be present in any other files either. Thank…
Comment: How to interpret infinite odds ratio?
by
Lukas
• 0
Thanks you for your answer. But according that links interpretation of inf odds ratio is up to hypothesis of the researcher.So my solution …
Comment: How to access GWAVA software of data
by
nonaddldy
▴ 10
Not found in https://ftp.sanger.ac.uk/resources/software/gwava/ ![][1] [1]: /media/images/f69695ec-e047-44f6-95ce-cd4edf1c
Comment: How to access GWAVA software of data
by
nonaddldy
▴ 10
https://www.sanger.ac.uk/tool/gwava/
Comment: Is it necessary to do genotype quality filteration after snp calling with GATK
by
IdaHao0921
• 0
The species I study is not a model species, VQSR can not be applied here. I already used gatk hard-filtering. I mean, after hard-filtering,…
Answer: Overlapping Ranges within Granges object
by
Alex Reynolds
35k
If you're not tied to Granges, you could use `bedmap --fraction-both 0.1` to require at least 10% overlap between reference and map regions…
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred
by
Vijith
▴ 30
By doing some online search, I tried installing one module `cpan Bio::DB::Fasta` and it is running like a never-ending installation process…
Comment: Getting the coding_sequence.fasta from the .gff file from the AUGUSTUS gene pred
by
Vijith
▴ 30
I have tried installing AGAT. But it failed the tests. …
Comment: BWA alignment
by
ATpoint
82k
That is not what the logs above tell, but good you solved it.
Answer: Inquiry about deseq2 transformation
by
ATpoint
82k
The transformations first correct for sequencing depth (and [composition][1]) and then apply the variance stabilization / regularization. N…
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