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Bioinformatics

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Awarded 1084 times.
ipdSummary command stops working if --identify m5C_TET is included in command, and does not give any m5C info either
Awarded Sep 8 at 22:00
Too many requests error when querying NCBI
Awarded Sep 6 at 13:06
Combing multiple SRA Runs into a single Sample, BioSample or Library
Awarded Sep 6 at 7:42
R package development: How does one automatically install Bioconductor packages upon package installation?
Awarded Sep 3 at 10:32
R function does not return NA when it should
Awarded Aug 18 at 5:00
windows shell -- running igblast: "BLAST query/options error: Germline annotation database ... internal_data directory cannot be found"
Awarded Aug 16 at 16:01
Understanding the Relationship Between ConClave Score, Depth, and Template Length in KMA Aligner Results
Awarded Jul 29 at 11:22
Where to access the WGCNA tutorial documents: Horvath lab site down
Awarded Jul 24 at 15:03
Where can I find Single Cell Data with Location "Coordinates"?
Awarded Jul 23 at 2:00
How to do enrichment analysis with scipy.stats.hypergeom.sf function
Awarded Jul 17 at 19:11
What is the origin of the 'source Gene ID' references given in the 'gene_presence_absence.csv' output of Roary?
Awarded Jul 9 at 3:20
Pointing Cromwell to local EBS mounted storage on AWS Batch
Awarded Jul 9 at 3:20
How to Call SNPs from Assembled Fasta Files?
Awarded Jul 1 at 20:03
How can I override the time limit set by my administrator on SLURM using snakemake?
Awarded Jun 19 at 21:18
Best practices for handling single-end and paired-end data in a Snakemake pipeline
Awarded Jun 18 at 11:42
Retrieving NCBI Taxa IDs from refseq or GenBank assembly accession
Awarded Jun 14 at 0:50
RNA-seq QC and alignment error in script
Awarded Jun 3 at 12:06
How fo force nextflow to repeat a process until all values in a particular channels are used up BUT a single value from another channel is needed
Awarded May 31 at 13:27
Convert ensemble genes to gene names in my sigle cell signature matrix annotated with seurat in R?
Awarded May 31 at 13:27
Constructing a pangenome graph using multiple samples
Awarded May 28 at 1:26
Help Understanding the Greedy Motif Search Algorithm from Textbook
Awarded May 24 at 20:55
Enrichment analysis of DMPs | new Ilumina EPIC V2 900K
Awarded May 20 at 14:41
How can I access the Cytoscape infrastructure from a local Python file?
Awarded May 12 at 11:33
Debugging manta 1.6.0 seg fault
Awarded May 8 at 23:57
Biopython / ETE3 get subtree of a newick tree
Awarded May 7 at 23:11
How to activate an installed plugin (NetworkAnalyzer) on Cytoscape?
Awarded May 2 at 18:14
cellranger-arc throws an error when demultiplexing
Awarded Apr 30 at 9:41
How to split FASTQ reads without re-running `fastq-dump`?
Awarded Apr 23 at 14:31
Fragment mass tolerance in proteomics analysis
Awarded Apr 20 at 21:04
How to specify the list of contigs in AGP gap file used for ENA submissions
Awarded Apr 17 at 13:12
How does BioPython generate IDs for atoms, residues, chains, and structures?
Awarded Apr 13 at 17:50
Understanding the significance of BLAT score calculations for read fragment alignment
Awarded Apr 11 at 11:49
problem with running Kallisto on single cell data
Awarded Apr 6 at 21:00
How to perform liftover from 38 to 37 in R?
Awarded Apr 4 at 12:50
How to extract mutations in a particular gene from the VCF file of whole genome
Awarded Mar 29 at 0:32
How are BLAST record scores calculated in biopython
Awarded Mar 21 at 16:30
Help with DIA-Mass Spectrometry data analysis with several conditions (limma?)
Awarded Mar 15 at 19:57
How to perform meaningful Gene set erichment analysis or otherwise find broader themes/functions in different cell populations?
Awarded Mar 15 at 10:57
How to perform meaningful Gene set erichment analysis or otherwise find broader themes/functions in different cell populations?
Awarded Mar 15 at 10:57
Proper formatting of .ped files, in order to run ADMIXTURE
Awarded Feb 29 at 1:11
Comparing sequence similarity of two sets of peptide sequences?
Awarded Feb 28 at 22:17
Making a volcano plot look less cluttered
Awarded Feb 27 at 3:46
Advise on building an effect ML model for predicting important proteins for drug response
Awarded Feb 22 at 16:02
Finding annotated counterpart after BLASTn with efetch (Biopython)
Awarded Feb 20 at 23:58
Chromosome position -> ENSP
Awarded Feb 15 at 15:34
Bar Graph of Expression Data from Seurat Object
Awarded Feb 14 at 13:51
conducting a ttest on a board of 1000 genes in 50 peope divided into to groups(A and B). pvalues are different each time
Awarded Feb 12 at 14:10
Converting convert .svs files into .mrxs format
Awarded Jan 19 at 1:27
Low custom tdtomato gene content
Awarded Jan 18 at 1:56
Remove sequences from a fasta file with IDs from a text file using Python
Awarded Dec 21, 2023 at 8:56
Discrepancy in Read Counts Between FastQ and BAM Files in Adapter-Trimmed Pipeline
Awarded Dec 15, 2023 at 17:36
Featureplot by co-expression of some genes
Awarded Dec 13, 2023 at 10:33
How to download Sequencing data on Windows using SRA toolkit?
Awarded Dec 11, 2023 at 12:56
PANTHER FUNCTIONAL CLASSIFICATION in R
Awarded Nov 21, 2023 at 8:41
retrieving past BLAST requests in bioPython
Awarded Nov 13, 2023 at 15:03
Filtering columns from large file based on a column list
Awarded Nov 13, 2023 at 13:34
How does the BWA-MEM algorithm assign its mapping qualities?
Awarded Nov 9, 2023 at 9:42
What is the exact definition of "breakend"?
Awarded Nov 8, 2023 at 23:55
Compare VCF files
Awarded Nov 7, 2023 at 13:56
error in downloading the annotation of sequences on NCBI
Awarded Nov 2, 2023 at 14:07
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