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90,480 results • Page
1 of 1810
Sort: Rank
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Votes
Replies
0
votes
2
replies
56
views
Snakemake with bwa_mem2_mem unable to open the ref file and doesn' t work
bwa-mem2
conda
snakemake
pipeline
updated 15 minutes ago by
colindaven
★ 2.7k • written 2 hours ago by
aka
• 0
0
votes
2
replies
23
views
Extract chromosome 1 - 22 fasta file
fasta
updated 31 minutes ago by
lmlukoseviciute
▴ 10 • written 1 hour ago by
shubhamkumbhar420
• 0
0
votes
1
reply
37
views
GATK GenomicsDBImport for consolidate GVCF
GATK
GenomicsDBImport
consolidate
updated 1 hour ago by
Pierre Lindenbaum
135k • written 1 hour ago by
mscpythonstudy
• 0
0
votes
1
reply
47
views
Question about methods monitoring the change from dsDNA/RNA to ssRNA/DNA
RNA
DNA
chaser
Substrate
updated 20 minutes ago by
ATpoint
48k • written 3 hours ago by
1063625819
• 0
0
votes
1
reply
56
views
SHAPEIT2 - ERROR "BAD RECOMBINATION RATE"
shapeit2
phasing
updated 25 minutes ago by
4galaxy77
▴ 400 • written 4 hours ago by
GiantSilverSoy
▴ 20
580
votes
155
replies
64k
views
89 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
handbook
tutorial
training
News
updated 6 days ago by
Biostar
10 • written 4.4 years ago by
Istvan Albert
87k
0
votes
0
replies
61
views
How to download pedigree (SNP's) from cattle
pedigree
data
snp
inference
haplotype
5 hours ago by
S. Roa
• 0
0
votes
0
replies
38
views
Job:
Multiple data scientist positions in computational biomedicine
CompBiology
Bioinformatics
MachineLearning
6 hours ago by
pandey.gaurav
▴ 130
2
votes
3
replies
98
views
GSEA for RNA_seq dataset
DEGs
GSEA
RNA_seq
updated 6 hours ago by
Zhilong Jia
★ 1.7k • written 13 hours ago by
1961012
• 0
0
votes
0
replies
26
views
OMA output document error
OMA
output
document
error
6 hours ago by
Yong
• 0
4
votes
4
replies
97
views
Hunting invisible characters?
adaptor
adapter
grep
updated 8 hours ago by
seidel
7.6k • written 11 hours ago by
geneticatt
▴ 120
0
votes
0
replies
36
views
Alternative Refence Allele in PLINK2 data files
PLINK2
ALLELE
11 hours ago by
carlstat123
• 0
0
votes
3
replies
105
views
How can I Extract Transposable element from a new genome assembly?
genome
transposons
assembly
annotations
updated 10 minutes ago by
lieven.sterck
11k • written 11 hours ago by
jaqx008
▴ 90
1
vote
1
reply
84
views
differential expression analysis
CRITERIA
DEGS
THRESOLD
updated 12 hours ago by
Mensur Dlakic
★ 10k • written 16 hours ago by
au.rinki.bio
▴ 10
21
votes
4
replies
2.2k
views
Tutorial:
A simple tutorial for a complex ComplexHeatmap
complexheatmap
clustering
arthritis
pam
Tutorial
updated 8 hours ago by
Rob
▴ 40 • written 11 months ago by
Kevin Blighe
72k
3
votes
2
replies
188
views
SNP's datasets and pedigreees
SNP
data
inference
haplotype
pedigrees
base
13 hours ago by
S. Roa
• 0
0
votes
3
replies
184
views
Arlequin problem (different loci number among different genotypes)
SNP
updated 14 hours ago by
lieven.sterck
11k • written 26 days ago by
wangh920
• 0
4
votes
1
reply
2.8k
views
Tool:
Clustering of short peptide sequences
peptide
clustering
phage display
Tool
updated 14 hours ago by
xiaoyuzhangh
• 0 • written 5.5 years ago by
jockbanan
▴ 390
2
votes
3
replies
95
views
X amino acid in ensembl
aminoacid
alignment
ensembl
protein
sequence
updated 12 hours ago by
Mensur Dlakic
★ 10k • written 16 hours ago by
Jason
• 0
0
votes
0
replies
30
views
Contradiction in Harzard ratio and Log fold change
Foldchange
Cancer
HR
HarzardRatio
LogFC
15 hours ago by
Mran
• 0
0
votes
11
replies
363
views
File conversion from coordinates to genes
conversion
updated 13 hours ago by
Alex Reynolds
32k • written 16 days ago by
storm1907
• 0
2
votes
1
reply
2.0k
views
Phylobayes, Tracecomp Output Interpretation
updated 16 hours ago by
Carolina Alejandra
• 0 • written 7.3 years ago by
5heikki
9.7k
0
votes
0
replies
34
views
List of codon numbers in a panel
browser
codon
list
ucsc
genome
18 hours ago by
ines
• 0
0
votes
0
replies
29
views
SECAPR issue
SECAPR
reads
trimmomatic
pipeline
alignement
18 hours ago by
Begonia_pavonina
▴ 20
1
vote
1
reply
65
views
bulk RNA-seq contamination, lung ambient RNA
mouse
bulkRNAseq
contamination
RNAseq
analysis
updated 16 hours ago by
jared.andrews07
9.3k • written 18 hours ago by
Lpak
• 0
5
votes
10
replies
162
views
6 follow
Multiqc raises the "cannot import name 'gcd' from 'fractions'" error
multiqc
linux
rna-sq
16 hours ago by
sabbirakhand25
• 0
0
votes
1
reply
65
views
Multiply BED scores by a normalization factor in precise intervals in Granges object.
R
18 hours ago by
massimofaggiani
• 0
5
votes
4
replies
95
views
Which Fasta file and GTF file to use in STAR alignment
STAR
ENSEMBL
GTF
fa
18 hours ago by
peru
• 0
0
votes
0
replies
112
views
how to combined peak score or other quantitative indicator when identify TF target gene
ChIP-Seq
19 hours ago by
shangguandong1996
▴ 10
2
votes
2
replies
94
views
How to set variant FILTER in a VCF file based on overlap with regions in a BED file
annotation
bed
vcf
20 hours ago by
William
★ 4.8k
7
votes
7
replies
352
views
6 follow
Forum:
R - A bioinformatic analysis programming language for NGS
bioinformatics
R
BI
NGS
5 hours ago by
guoxuantong
▴ 120
2
votes
6
replies
116
views
Meaning letters in TCGA sample barcode field
GDC
Barcode
TCGA
23 hours ago by
sumitguptabt
• 0
1
vote
0
replies
43
views
Methylation frequency + and - strand
methylation
Bismark
23 hours ago by
Palgrave
▴ 30
0
votes
0
replies
35
views
Error : Fail to open file file.vcf for normalization with vt
normalization
vt
vcf
23 hours ago by
Sar
• 0
0
votes
2
replies
87
views
Salmon Script Troubleshooting for RNA Seq Data
NextGenerationSequencing
RNAseq
Bash
Slurm
Salmon
updated 23 hours ago by
ATpoint
48k • written 1 day ago by
makylakb
• 0
0
votes
0
replies
56
views
Adjusting for the effect of other variables for DGEA in EdgeR
RNASeq
edgeR
DGEA
23 hours ago by
emilien.hourquet
• 0
1
vote
1
reply
62
views
Normalisation before edgeR for RNA-Seq
rna-seq
edgeR
updated 23 hours ago by
ATpoint
48k • written 1 day ago by
ZheFrench
▴ 320
0
votes
1
reply
55
views
MASURCA output
masurca
updated 18 hours ago by
Carambakaracho
★ 2.4k • written 1 day ago by
kilcdincer
▴ 10
0
votes
3
replies
77
views
short length amino acids
short
amino
acids
alignment
length
updated 22 hours ago by
GenoMax
99k • written 1 day ago by
desptsp
• 0
0
votes
1
reply
240
views
comparing enriched GO terms between species
RNA-Seq
go
annotation
updated 1 day ago by
babalyigit
• 0 • written 9 months ago by
martinaweil
• 0
2
votes
4
replies
217
views
MASURCA error for multiple entries
masurca
updated 22 hours ago by
Kevin Blighe
72k • written 6 days ago by
kilcdincer
▴ 10
4
votes
11
replies
178
views
Download all Bacteria accession list from NCBI
number
accession
NCBI
19 hours ago by
K.Gee
▴ 40
0
votes
0
replies
53
views
Correlation test based on position sliding window for multiple variables
statistics
R
corr.test
23 hours ago by
User000
▴ 440
0
votes
1
reply
56
views
Precision of variant calling (INDELs)
INDELs
hap.py
updated 22 hours ago by
desouzareis.r
▴ 220 • written 1 day ago by
esimonova.me
▴ 10
0
votes
0
replies
39
views
DEG list turn into keggscape
Cytoscape
RNA-Sequencing
1 day ago by
ashwing.kofficial
• 0
0
votes
0
replies
70
views
How can I slicing to RS4 type in rpy2?
rpy2
slicing
rs4
rpy
1 day ago by
dxodnd
• 0
0
votes
0
replies
73
views
Trycycler Assembly_Issue in Flye and MInimap2
Flye
minimap2
Trycycler
1 day ago by
Shiv_2
• 0
0
votes
1
reply
92
views
Combining results tables to plot automatecally
DESeq2
updated 1 day ago by
swbarnes2
9.7k • written 1 day ago by
hydrobeanz
• 0
1
vote
1
reply
104
views
R command worked yesterday, but stalls today?
R
updated 1 day ago by
Mensur Dlakic
★ 10k • written 1 day ago by
cthangav
• 0
0
votes
0
replies
75
views
Cytoscape: Advice on best analysis methods for PPI network
ontology
network
gene
PPI
cytoscape
1 day ago by
Haley
• 0
90,480 results • Page
1 of 1810
Recent Votes
Comment: bulk RNA-seq contamination, lung ambient RNA
A: .mcool to .hic
A: .mcool to .hic
C: Variant Call Format (VCF)
Pheatmap Annotation
Answer: X amino acid in ensembl
Answer: Which Fasta file and GTF file to use in STAR alignment
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Recent Replies
Comment: How can I Extract Transposable element from a new genome assembly?
by
lieven.sterck
11k
Why would you not start from scratch with repeatmasker? It will be the most accurate way to mask repeats in your genome. Simply mapping …
Answer: Snakemake with bwa_mem2_mem unable to open the ref file and doesn' t work
by
colindaven
★ 2.7k
This is a pretty common task. Why not try out the snakemake pipeline put together by the Snakemake authors? Why reinvent the wheel ? htt…
Comment: Question about methods monitoring the change from dsDNA/RNA to ssRNA/DNA
by
ATpoint
48k
I think you should ask this at a more suitable community that is more wetlab-orientated, such as a suitable SubReddit or ResearchGate. It i…
Comment: Snakemake with bwa_mem2_mem unable to open the ref file and doesn' t work
by
lmlukoseviciute
▴ 10
Hello, a few things I see here, not sure if they will solve your problem. 1st your both inputs are the same R1 read, there is no R2. 2nd…
Comment: SHAPEIT2 - ERROR "BAD RECOMBINATION RATE"
by
4galaxy77
▴ 400
Btw, shapeit2 is quite outdated now. shapeit4 is much more recent / faster / accurate https://anaconda.org/bioconda/shapeit4
Answer: Extract chromosome 1 - 22 fasta file
by
lmlukoseviciute
▴ 10
Hello, you I am not really sure if you want to see only chromosome names or the sequences it self. But as of the example you can try. `zca…
Comment: Extract chromosome 1 - 22 fasta file
by
shenwei356
5.8k
seqkit grep -i -r -p '^chr[\dXY]+$' h19.fa.gz -o result.fa.gz
Comment: GATK GenomicsDBImport for consolidate GVCF
by
Pierre Lindenbaum
135k
in GATK the option `-L` is designed to define an interval (a bed file, a interval_file, etc..) not , as far as I can see, a list of of "fra…
Comment: What is gnomAD allele frequency
by
Eric Wang
▴ 40
Thank you for your answer.
Comment: R - A bioinformatic analysis programming language for NGS
by
guoxuantong
▴ 120
Thank you so much for informing me. I've removed the reference numbers in the body of the article, and I find the platform seems to be unab…
Comment: Finding all instances of a recurring motif in a repeat protein
by
NeuralCode
• 0
Thanks so much! HMMer is great. Now pulling out hundreds of instances of this domain for my big alignment.
Answer: GSEA for RNA_seq dataset
by
Zhilong Jia
★ 1.7k
Using all genes with signed P-value to rank genes, where the sign is from LogFC. and `GSEAPreranked` module in GSEA. ref: [Gene Ranki…
Comment: How can I Extract Transposable element from a new genome assembly?
by
Philipp Bayer
6.9k
if you can transform the bed to gff (galaxy has tools for that), you could also use liftoff which wraps all of this in a pipeline https://g…
Comment: A simple tutorial for a complex ComplexHeatmap
by
Rob
▴ 40
Great! Thank you ATpoint
Comment: Hunting invisible characters?
by
seidel
7.6k
Another way to see hidden characters is to pipe them through octal dump: `cat infile | od -c` this will print out hidden characters, newlin…
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