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121,904 results • Page 636 of 2439
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2
votes
9
replies
3.6k
views
RNAseq: units (TPM +0.001).
TPM ARNseq
updated 3.1 years ago by ★ 1.2k • written 4.3 years ago by • 0
0
votes
5
replies
4.0k
views
retrieve_pdb_file from Bio.PDB.PDBList creates .ent files, not .pdb
biopython bio.pdb pyrosetta PDBList rmsd
updated 4.2 years ago by ★ 30k • written 4.3 years ago by • 0
5
votes
0
replies
1.0k
views
Herald: The Biostar Herald for Tuesday, June 08, 2021
herald
updated 4.3 years ago by 103k • written 4.3 years ago by 3.6k
8
votes
8
replies
2.6k
views
Find genes overlapping intervals in R and keep the original Intervals
bedtools annotations R genes
updated 4.3 years ago by 45k • written 4.3 years ago by ▴ 40
1
vote
5
replies
2.5k
views
allele frequency from different read depths
allele depth frequency vcf read
updated 4.3 years ago by ▴ 430 • written 4.3 years ago by ▴ 90
0
votes
2
replies
1.2k
views
Building a phylogenetic tree from different ortholog groups
COGs phylogenetics msa
4.3 years ago by timothy.kirkwood ▴ 140
0
votes
6
replies
1.8k
views
Query regarding Differentially Expressed Genes Network analysis.
Network Analysis STRING
updated 4.2 years ago by 45k • written 4.3 years ago by • 0
0
votes
0
replies
989
views
Read trimming in BS-Seq
Methylation BS-Seq Bismark WGBS
4.3 years ago by Arindam Ghosh ▴ 550
0
votes
0
replies
918
views
Lastz output interpretation - only entries from positive strand
genome pairwise alignment lastz
4.3 years ago by manaswwm ▴ 570
0
votes
5
replies
2.0k
views
segfault in ADMIXTURE
software error
updated 4.3 years ago by ▴ 820 • written 4.6 years ago by • 0
0
votes
0
replies
632
views
GPSPROT image/network download with script
GPSPROT
4.3 years ago by Shicheng Guo ★ 9.6k
2
votes
4
replies
1.9k
views
Merge replicate fastq files of the same sample together?
fastq RNA-seq
4.3 years ago by foxiw ▴ 10
0
votes
3
replies
1.2k
views
Can you predict the size of a BAM file based on the fasta?
storage mapping bam
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 130
0
votes
0
replies
1.2k
views
Calculate distances from multi fasta alignment considering ambiguous bases as different
distances msa python unix
4.3 years ago by Gon ▴ 10
4
votes
3
replies
3.1k
views
How to create a subset from a Nanopore fast5 file?
nanopore fast5 ont
4.3 years ago by shelkmike ★ 1.8k
0
votes
0
replies
952
views
extract transcripts with particular class code in Cuff/GffCompare
GffCompare Class CuffCompare code RNA-Seq
4.3 years ago by SKY ▴ 60
5
votes
3
replies
3.7k
views
Purpose of bamCoverage RPKM normalization method
rpkm bamCoverage
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 390
7
votes
3
replies
5.6k
views
error bowtie2-align exited with value 134
fastq bowtie2
updated 4.3 years ago by 89k • written 4.3 years ago by ★ 1.3k
1
vote
1
reply
934
views
problem with contrastive principal component analysis (cPCA)
scPCA cPCA
updated 4.3 years ago by 89k • written 4.3 years ago by ▴ 260
0
votes
0
replies
745
views
Map BED12 file exon coordinates between species using UCSC liftOver
software problem liftOver
4.3 years ago by celebiration8 ▴ 10
0
votes
2
replies
989
views
RNA-Microarray-Data-Analysis
Microarray Expression
updated 4.3 years ago by ▴ 880 • written 4.3 years ago by ▴ 40
0
votes
3
replies
1.2k
views
adding gene symbol to bed file
gene-symbol bed
updated 2.5 years ago by 45k • written 4.3 years ago by ▴ 40
0
votes
1
reply
1.1k
views
The huge difference in results draft assembly between Canu with Flya
Nanopore ONT Flya Canu
updated 4.3 years ago by 7.9k • written 4.3 years ago by ▴ 100
4
votes
9
replies
3.0k
views
extracting ensembl gene id or entrez gene id from a gene annotation file for BINGO app of cytoscape
BINGO analysis RNA-seq R GO
updated 4.2 years ago by ★ 1.1k • written 4.3 years ago by ▴ 30
1
vote
0
replies
1.7k
views
Tutorial: How to: make Camellia sinensis var. sinensis (black tea) custom annotation files for BINGO Cytoscape
bingo cytoscape
4.3 years ago by Pratik ★ 1.1k
3
votes
5
replies
2.3k
views
Change format of counts of single cell RNA-seq data from csv to mtx format from synapse.org
single RNA-seq cell
4.3 years ago by ali_karimnezhad ▴ 20
1
vote
2
replies
1.8k
views
R package DiffBind -- Error: No sites have activity greater than minMaxval
DiffBind
4.3 years ago by alexmondaini ▴ 20
0
votes
2
replies
1.1k
views
Best method of integrative analysis for GWAS and differential expression data
GWAS
4.3 years ago by Shicheng Guo ★ 9.6k
2
votes
7
replies
6.1k
views
6 follow
How to remove samples with no genotypes from vcf
VCF
updated 2.9 years ago by ▴ 50 • written 4.3 years ago by ▴ 510
0
votes
6
replies
3.4k
views
EdgeR compare multiple groups in a 1 vs other comparison?
Expression R EdgeR Differential
4.3 years ago by shanasabri ▴ 40
3
votes
8
replies
4.8k
views
how to batch download SARS-CoV-2 sequences data from NCBI?
sequence sequencing
updated 4.3 years ago by 153k • written 4.8 years ago by ▴ 40
2
votes
3
replies
3.8k
views
Extremely low bootstrap values for phylogenetic tree
bootstrap phylogenetic tree
updated 4.3 years ago by 56k • written 4.3 years ago by ▴ 20
0
votes
0
replies
894
views
Job: PhD position: bioinformatics analysis of omics data in frontotemporal dementia
genetics phd
updated 2.3 years ago by 45k • written 4.3 years ago by 48k
0
votes
0
replies
831
views
Job: JOB: Data Ontologist - Remote
data-ontologist
updated 2.8 years ago by 45k • written 4.3 years ago by • 0
0
votes
0
replies
808
views
Job: JOB: Bioinformatician - Remote
bioinformatics-scientist
updated 2.8 years ago by 45k • written 4.3 years ago by • 0
0
votes
0
replies
734
views
Tool: Unicorn Papers - Top ‱ cited papers from PUBMED
citation paper research PUBMED bibliometrics
4.3 years ago by Lukasz Kozlowski • 0
1
vote
7
replies
2.5k
views
ENA: Same ERR for multiple samples
ENA
updated 4.3 years ago by 153k • written 4.3 years ago by ▴ 130
2
votes
5
replies
2.0k
views
filtering vcfs by at least lof variants
lof
4.3 years ago by storm1907 ▴ 30
2
votes
12
replies
4.8k
views
prefetch in linux
RNA coding data non SRR
updated 4.3 years ago by 89k • written 4.3 years ago by • 0
0
votes
0
replies
853
views
News: Online Training - DNA Methylation
DNAmethylation epigenetics
updated 4.2 years ago by 45k • written 4.3 years ago by ★ 2.6k
0
votes
8
replies
1.9k
views
Convert "chrom:position" to gene name
gene R
updated 4.3 years ago by 45k • written 4.3 years ago by ▴ 30
0
votes
0
replies
1.4k
views
Have a question about run jellyfish in many directories with different number of zipped fasta files
bash
4.3 years ago by schlogl ▴ 180
0
votes
0
replies
745
views
CNV detection from populational allele frequency data
CNV genetics populational
4.3 years ago by Eugene A ▴ 190
0
votes
0
replies
627
views
Using R package to implement Bayesian phase I/II dose-finding design for three outcomes
clinic biostatistics trial dose-finding Bayesian
4.3 years ago by Ran • 0
2
votes
5
replies
3.7k
views
plink2 reorder alleles by fasta reference
PLINK2
updated 4.3 years ago by 11k • written 4.3 years ago by ▴ 110
0
votes
7
replies
3.5k
views
Diffbind:dba.plotProfile error: each range must have an end that is greater or equal to its start minus one
Diffbind Bioconductor R
updated 4.2 years ago by 45k • written 4.3 years ago by • 0
1
vote
2
replies
1.0k
views
aligning reads against shorter region
alingment Bowtie2
4.3 years ago by Juke34 9.3k
0
votes
8
replies
2.9k
views
Logfold change (Limma Package) in methylation association studies
limma logfoldchange
updated 15 months ago by ★ 3.1k • written 4.3 years ago by ▴ 10
0
votes
0
replies
1.2k
views
How to run coverage2cytosine
Bismark coverage2cytosine DNA-methylation
4.3 years ago by linelr ▴ 40
0
votes
0
replies
1.4k
views
Error in (1 - h) * qs[i] : non numeric argument to binary operator
Rstudio
updated 4.3 years ago by 45k • written 4.3 years ago by • 0
121,904 results • Page 636 of 2439
Recent Votes
Answer: Tried building a compact sequence format with 4-bit storage
Tried building a compact sequence format with 4-bit storage
Shift in RNA 3' position, Term-Seq vs RNASeq
Comment: STARlong for pacbio Isoseq reads
Comment: Automatically annotating a feature using a genbank file
Answer: Is this PCA plot correct??
Answer: Is this PCA plot correct??
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Recent Replies
Comment: Is total miRNA in EV constant? Implications for library size normalization. by Gordon Smyth ★ 8.3k
RNA-seq is very good at relative analyes. It would be straightforward to determine which miRNAs are relatively more abundant, compared to o…
Comment: Tried building a compact sequence format with 4-bit storage by Pranava ▴ 10
Woah!!! Thank you very much, Matthias. I honestly didn't even know some of those existed and I will definitely go through them and try to u…
Answer: Tried building a compact sequence format with 4-bit storage by Matthias Zepper 5.1k
Hello Pranava, Thanks for sharing your repository. Devising a new file format is an interesting undertaking and certainly a task with many…
Answer: Gene Ontology Enrichment with LOC gene IDs in Common Carp (Cyprinus carpio) by GenoMax 153k
`LOC` gene ID's are often assigned to uncharacterized genes and you may not get useful information from databases for them, thus they will …
Comment: Whole Genome Sequencing IG regions by GenoMax 153k
> are the calls I am seeing reliable or should I take them with something of a pinch of salt? Not sure what calls you are referring to but…
Comment: RNA-SEQ where only a subset of genes is of interest by piffelpaff • 0
Sorry to revive this ancient thread but I'm currently discussing the same question with some people in my lab and would love to somebody po…
Answer: STARlong for pacbio Isoseq reads by YuZJ • 0
Hello, you may try deSALT (DOI: 10.1186/s13059-019-1895-9, GitHub: ydLiu-HIT/deSALT) or uLTRA (DOI: 10.1093/bioinformatics/btab540, GitHub:…
Comment: Shift in RNA 3' position, Term-Seq vs RNASeq by acvill ▴ 350
Without knowing the details of the Term-seq method, could the 38 nt shift be accounted for by the difference in the position of the ribosom…
Comment: STARlong for pacbio Isoseq reads by Buffo ★ 2.4k
Thanks, I'll give it a try.
Comment: STARlong for pacbio Isoseq reads by GenoMax 153k
You could give `mapPacBio.sh` from BBMap suite a try while you wait for other answers. That works for reads up to 6 kb. BBMap has a new hom…
Comment: STARlong for pacbio Isoseq reads by Buffo ★ 2.4k
The average is 1.8kb. I was planning to post it on GitHub, but it seems like the repository has been unattended for the last months, so I d…
Comment: Getting just fastqc.zip file? by GenoMax 153k
Yes, You can either use it on command line or use the graphical user interface.
Comment: STARlong for pacbio Isoseq reads by GenoMax 153k
What is the average length of your reads? That error sounds like a bug, so you may want to post that on `STAR` repo as an issue. I assume …
Comment: Getting just fastqc.zip file? by pourhangleila95 • 0
I want to perform fastQC on my data.Do you use fastQC software for doing it?
Comment: Whole Genome Sequencing IG regions by 719 • 0
Sorry for the poor wording of the original post, also should say I really appreciate people taking a moment to look at my post. My main con…
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