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121,926 results • Page
90 of 2439
Sort: Rank
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Votes
Replies
0
votes
3
replies
977
views
Help with heatmaps
DeSeq2
genecounts
heatmap
RNAseq
updated 14 months ago by
LauferVA
4.8k • written 14 months ago by
rb_99
• 0
0
votes
1
reply
707
views
GATK CNV pipeline gcnvkernel import error
Theano
gcnvkernel
GATK
CNV
HPC
14 months ago by
Maverick
▴ 10
6
votes
3
replies
1.2k
views
Does single-end short-read sequencing affect the mapping of mitochondrial and ribosomal RNA?
pair-end
single-end
RNA-seq
updated 14 months ago by
kalavattam
▴ 380 • written 14 months ago by
txema.heredia
▴ 250
4
votes
25
replies
4.8k
views
How can I convert multiple bam files in a directory into fastq files using samtools bam2fq?
samtools
bam
fastq
14 months ago by
Arthur
▴ 10
0
votes
0
replies
492
views
ddRADseq: GATK not matching STACKS refmap in terms of resolution?
polyploidy
RADseq
variant-calling
STACKS
GATK
updated 14 months ago by
Ram
45k • written 14 months ago by
Valentin
• 0
0
votes
2
replies
826
views
How to Convert a tar file to a fastq file in Galaxy
galaxy
updated 14 months ago by
Mensur Dlakic
★ 30k • written 14 months ago by
rita
• 0
0
votes
2
replies
871
views
Help with cnet plot for customize pathway from MSigDb
cnet
14 months ago by
Chris
▴ 360
0
votes
1
reply
542
views
MCScanx is giving an Empty Output
MCScanX
updated 14 months ago by
Pierre Lindenbaum
166k • written 14 months ago by
agnes.barros88
• 0
2
votes
14
replies
2.4k
views
FastQC GC-content, bimodal for maize?
RNA-seq
14 months ago by
boczniak767
▴ 880
0
votes
1
reply
669
views
RNA-seq, TMM and rRNA counts. Should rRNA genes be removed prior to DE analysis?
mtRNA
RNA-seq
rRNA
TMM
updated 14 months ago by
Shred
★ 1.6k • written 14 months ago by
gjuik
• 0
2
votes
8
replies
2.3k
views
Out of Sequencer Nanopore Raw Data
fastq
assembly
fast5
genome
nanopore
updated 14 months ago by
GenoMax
153k • written 14 months ago by
SomeOne
▴ 240
0
votes
1
reply
590
views
KO number id to gene symbol
R
updated 14 months ago by
BioinfGuru
★ 2.1k • written 14 months ago by
sooni
▴ 20
1
vote
16
replies
3.1k
views
How to use NCBI annotation instead of Ensembl in analysing Transcriptome from RNAseq data
txdb
Ensembl
NCBI
RNAseq
14 months ago by
Vojtěch
▴ 10
0
votes
2
replies
747
views
SNP or Variant Calling and Annotation with RNA-seq Reads
rna-seq
variant
alignment
updated 14 months ago by
dthorbur
★ 3.1k • written 14 months ago by
vireen105
• 0
1
vote
13
replies
2.0k
views
Error with plotMDS in R
plotMDS
RStudio
14 months ago by
egascon
▴ 60
1
vote
3
replies
662
views
Using samtools to determine Rh blood type
samtools
14 months ago by
esiv
• 0
1
vote
1
reply
661
views
Comparison of the AA position of domains on cBioPortal and UniProt
UniProt
cBioPortal
14 months ago by
larissa.kluxen
▴ 10
0
votes
1
reply
543
views
Changing the .gmt file output format
gmt
updated 14 months ago by
Ram
45k • written 14 months ago by
Delicious_Puddin-chan
• 0
0
votes
2
replies
717
views
Genotype imputation check
imputation
updated 14 months ago by
GenoMax
153k • written 14 months ago by
Sen
• 0
6
votes
14
replies
4.0k
views
Reheadering a subsetted bam gives truncated file
samtools
bam
updated 14 months ago by
kalavattam
▴ 380 • written 7.2 years ago by
Luciferine
• 0
0
votes
0
replies
498
views
News:
Online course: Introduction to Nextflow
Nextflow
Pipeline
Workflow-Manager
Reproducibility
updated 14 months ago by
Ram
45k • written 14 months ago by
Physalia-courses
★ 2.6k
0
votes
2
replies
1.2k
views
Seurat v5 SCTransform warning messages (I consistently get 50 warnings)
SCTransform
snRNA-seq
updated 14 months ago by
fracarb8
★ 1.7k • written 14 months ago by
michelle.swarovski
• 0
5
votes
11
replies
2.7k
views
Basic guidance on Using 10x Genomics Data for De Novo Assembly
10x
Assembly
updated 14 months ago by
GenoMax
153k • written 15 months ago by
aleponce
• 0
3
votes
5
replies
1.2k
views
samtools mpileup include soft-clipped bases
samtools
NGS
soft-clip
mpileup
14 months ago by
noodle
▴ 650
10
votes
6
replies
20k
views
7 follow
Continuously add lines to ggplot with for loop
R
ggplot2
updated 14 months ago by
BioinfGuru
★ 2.1k • written 8.7 years ago by
frcamacho
▴ 210
2
votes
4
replies
1.0k
views
Why Are There Differences in RNA-seq Results?
IGV
RNA-seq
14 months ago by
ZZOYEA
▴ 20
0
votes
2
replies
708
views
Regions Overlap failure using bwa-mem2
bwa-mem2
conda
14 months ago by
jsmith120f
• 0
0
votes
3
replies
2.4k
views
DoubletFinder error
seurat
doublets
scRNA
updated 14 months ago by
Ram
45k • written 14 months ago by
marco.barr
▴ 180
0
votes
1
reply
483
views
how to count polymorphic snps in vcf file
vcf
updated 14 months ago by
Pierre Lindenbaum
166k • written 14 months ago by
26bhagwat
• 0
0
votes
6
replies
1.9k
views
Discrepancies in Sequence Length Distribution Between Trim Galore and Trimmomatic During Adapter Trimming
fastqc
TrimGalore
multiqc
Trimmomatic
14 months ago by
George
▴ 20
1
vote
1
reply
629
views
Discrepancies in F Coefficient and Heterozygosity Estimates
population-genetics
F-coefficient
plink
vcftools
updated 14 months ago by
Ram
45k • written 14 months ago by
eleftosi
• 0
3
votes
11
replies
1.9k
views
FASTQC: per base n content fail
FASTQC
updated 14 months ago by
GenoMax
153k • written 14 months ago by
Eddie
• 0
0
votes
3
replies
1.3k
views
Changing font size in the key in heatmap.2
R
heatmap
heatmap.2
updated 14 months ago by
Ram
45k • written 14 months ago by
Gerard
▴ 20
0
votes
0
replies
427
views
Mapping of gene names in GSVA
Ensembl
GSVA
HGNC
14 months ago by
mrashad
▴ 80
0
votes
3
replies
609
views
Trycycler cluster crash
trycycler
updated 14 months ago by
GenoMax
153k • written 14 months ago by
Daniele
• 0
43
votes
19
replies
77k
views
14 follow
Forum:
Will A Masters In Bioinformatics Help Me In Getting A Job?
education
career
updated 14 months ago by
Ram
45k • written 14.5 years ago by
Bioinfo
▴ 50
1
vote
1
reply
573
views
centromere of cattle
centromere
cattle
14 months ago by
Star:)
▴ 50
8
votes
5
replies
46k
views
6 follow
How can I simply view the .vcf.gz file to get some basic information
SNP
genome
updated 14 months ago by
venkat
▴ 10 • written 5.1 years ago by
nreid
▴ 10
0
votes
1
reply
1.1k
views
Visualize in IGV mitochondrial variants found with MToolBox
IGV
MtoolBox
Mitochondria
updated 14 months ago by
venkat
▴ 10 • written 4.5 years ago by
BIN
• 0
6
votes
11
replies
5.5k
views
6 follow
User friendly (visual&interactive) VCF/BCF mining tools (2021)
gui
vcf
updated 14 months ago by
venkat
▴ 10 • written 4.0 years ago by
William
★ 5.4k
0
votes
1
reply
633
views
SNPs with missing INFO tags from bcftools mpileup
bcftools
mpileup
updated 14 months ago by
iraun
6.2k • written 14 months ago by
malonzm1
▴ 20
14
votes
6
replies
1.4k
views
Problem with gather() in R
gather
r
14 months ago by
egascon
▴ 60
0
votes
2
replies
631
views
Merino sheep genetic map
recombination
genetic-map
14 months ago by
PKW
▴ 110
0
votes
0
replies
341
views
can i use cmapM(matlab) in windows OS?
converting
3
4
5
cmap
level
14 months ago by
kim
• 0
0
votes
1
reply
894
views
Transferring Seurat Cluster Colours for scVelo analysis
Seurat
scVelo
Velocity
scRNAseq
updated 14 months ago by
antonioggsousa
3.4k • written 14 months ago by
Megan
• 0
4
votes
1
reply
645
views
Asking the meaning of the reference sequence
bowtie2
updated 14 months ago by
GenoMax
153k • written 14 months ago by
Pallondyle
• 0
1
vote
2
replies
923
views
Hisat2 mapping stringency
hisat2
14 months ago by
MA
▴ 10
0
votes
0
replies
723
views
Job:
PhD and Postdoc Positions in AI-driven Drug Discovery at the University of Florida
Computational-biology
PhD
AIDD
Postdoc
14 months ago by
AIDD
• 0
2
votes
14
replies
2.2k
views
convert list to fasta format
python
updated 14 months ago by
Ram
45k • written 14 months ago by
pinheirofabiano
▴ 130
0
votes
0
replies
353
views
qsea makeTable()
bioconductor
qsea
r
makeTable
updated 14 months ago by
zx8754
12k • written 14 months ago by
Sophia
• 0
121,926 results • Page
90 of 2439
Recent Votes
Answer: Restricting ncbi-genome-download (bacteria, viral, fungi, archaea, protozoa) to
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gnomAD: query utilitites
Answer: How to overcome OS return value: 4 with SPAdes
Answer: How to overcome OS return value: 4 with SPAdes
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Comment: Restricting ncbi-genome-download (bacteria, viral, fungi, archaea, protozoa) to
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153k
> I don't think there are any host links in NCBI records This information is not available for all genomes, but it is there for some of th…
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As you said, the package does not support the search for hosts. Furthermore, I don't think there are any host links in NCBI records, so it …
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There may be a better answer, but let us start here. This is a two (or more step) solution using NCBI `datasets` ([**LINK**][1]). NOTE: I…
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Joining the convo a bit late, but I found it super useful since I am struggling to analyze MGI data myself. For the library prep used in th…
Comment: How to overcome OS return value: 4 with SPAdes
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marongiu.luigi
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Yep, that was it. I was using a G:-sync folder... Thank you.
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There is no way to "code" this directly. Your problem is mathematics, not programming. Standard stochastic models deal with a set of sta…
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I am going to hazard a guess that the spaces and email address in file path (you may want to redact your email from post above) is causing …
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153k
Are you trying to reproduce the assembly result? If not, the complete assembly is already available at NCBI: https://www.ncbi.nlm.nih.gov…
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GenoMax
153k
This may be another example where the assembly you obtained may be better than an existing one .. certainly as far as the accessory chromos…
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There are some reference assemblies. Some close ones are at chromosome level but exact reference are not chromosome level assemblies. Othe…
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Nice detective work! :)
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pranavdatar01
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The SRA accession is SRX12366993
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> After I find some differences between the assembly and the reference, how can I decide confident variants without the depth? Don't think…
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Did you check whether your species' fasta file is named correctly? From memory Orthofinder will pull in files ending in .fa and .fasta in t…
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Thank you for your kind answer. May I ask some following questions. However, I only have full access to assembled genomes, and some to ra…
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