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answers
2
votes
1
reply
179
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Answer:
Answer: SPAdes error: finished abnormally, OS return value: 21
20 hours ago by
Brian Bushnell
19k
0
votes
1
reply
291
views
Answer:
Answer: subset a bam file
3 days ago by
Brian Bushnell
19k
1
vote
1
reply
405
views
Answer:
Answer: SNPs of a specific mouse strain
4 days ago by
Brian Bushnell
19k
3
votes
1
reply
359
views
Answer:
Answer: selection of reference genome
4 days ago by
Brian Bushnell
19k
3
votes
1
reply
473
views
Answer:
Answer: How to filter .fasta file based on conditional statement
5 days ago by
Brian Bushnell
19k
1
vote
1
reply
560
views
Answer:
Answer: Working with NCBI downloadable Datasets
6 days ago by
Brian Bushnell
19k
1
vote
0
replies
227
views
Answer:
Answer: Find all locations of aligned reads with MQ (Mapping Quality) = 0.
6 days ago by
Brian Bushnell
19k
2
votes
0
replies
465
views
Answer:
Answer: Is there a good software to generate test genomics data?
4 days ago by
Brian Bushnell
19k
2
votes
0
replies
202
views
Answer:
Answer: Shorten Illumina reads
6 days ago by
Brian Bushnell
19k
0
votes
0
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339
views
Answer:
Answer: Novaseq read coverage needed for demultiplexing
9 days ago by
Brian Bushnell
19k
1
vote
0
replies
1.6k
views
Answer:
Answer: BaseRecalibrator takes forever to run. Any suggestions?
10 days ago by
Brian Bushnell
19k
4
votes
3
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1.0k
views
Answer:
Answer: Bbtools callvariant multisample mode, + base recalibration
10 days ago by
Brian Bushnell
19k
0
votes
0
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166
views
Answer:
Answer: Trimming pair end fastq files merged not interleaved
12 days ago by
Brian Bushnell
19k
0
votes
1
reply
905
views
Answer:
Answer: Poly-A trimming for WGBS
12 days ago by
Brian Bushnell
19k
0
votes
0
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167
views
Answer:
Answer: how to create a consensus sequence from different assemblies
13 days ago by
Brian Bushnell
19k
2
votes
2
replies
799
views
Answer:
Answer: Uncertainty of how to proceed with Metagenomic Analysis of WGS data
14 days ago by
Brian Bushnell
19k
1
vote
1
reply
298
views
Answer:
Answer: Conceptual question about open reading frames
16 days ago by
Brian Bushnell
19k
1
vote
0
replies
249
views
Answer:
Answer: Do threads matter for host DNA removal with bbmap?
18 days ago by
Brian Bushnell
19k
0
votes
0
replies
565
views
Answer:
Answer: Detect contaminating organism
19 days ago by
Brian Bushnell
19k
1
vote
1
reply
464
views
Answer:
Answer: RNA-Seq with DNA contamination, any way to salvage the data?
19 days ago by
Brian Bushnell
19k
1
vote
0
replies
7.1k
views
Answer:
Answer: Randomize Read Order In Multigbp Fastq File?
21 days ago by
Brian Bushnell
19k
1
vote
1
reply
420
views
Answer:
Answer: Tools for reference-guided de novo assembly of bacterial genome
4 weeks ago by
Brian Bushnell
19k
3
votes
1
reply
331
views
Answer:
Answer: Exception in thread "main" java.lang.RuntimeException: Sequence and quality leng
4 weeks ago by
Brian Bushnell
19k
3
votes
1
reply
908
views
Answer:
Answer: What is the best way to compute genetic distances between FASTQ files?
4 weeks ago by
Brian Bushnell
19k
1
vote
0
replies
325
views
Answer:
Answer: Small RNA sequencing using Illumina 2 channel SBS: how to deal with Gs?
5 weeks ago by
Brian Bushnell
19k
1
vote
1
reply
325
views
Answer:
Answer: Complexity curve for PE fastq files
5 weeks ago by
Brian Bushnell
19k
2
votes
1
reply
433
views
Answer:
Answer: What are unbinned contigs ?
5 weeks ago by
Brian Bushnell
19k
1
vote
2
replies
616
views
Answer:
Answer: BBtools callvariants.sh
5 weeks ago by
Brian Bushnell
19k
0
votes
0
replies
1.1k
views
Answer:
Answer: How to discard alignments from SAM/BAM file that have mismatches
5 weeks ago by
Brian Bushnell
19k
1
vote
0
replies
623
views
Answer:
Answer: Repeat detection/masking in bacteria
5 weeks ago by
Brian Bushnell
19k
0
votes
0
replies
569
views
Answer:
Answer: Deduplication
5 weeks ago by
Brian Bushnell
19k
0
votes
0
replies
1.2k
views
Answer:
Answer: Aligning very short sequences using bowtie2, I need fine control over how many m
5 weeks ago by
Brian Bushnell
19k
1
vote
0
replies
556
views
Answer:
Answer: Mitochondrial contig identification in fungal genome assemblies
5 weeks ago by
Brian Bushnell
19k
0
votes
0
replies
298
views
Answer:
Answer: Partition reads in BAM file by MAG
6 weeks ago by
Brian Bushnell
19k
1
vote
0
replies
1.0k
views
Answer:
Answer: Can BWA (mem) detect longer deletions?
6 weeks ago by
Brian Bushnell
19k
0
votes
0
replies
705
views
Answer:
Answer: Average Coverage after Assembly (Spades)
6 weeks ago by
Brian Bushnell
19k
1
vote
1
reply
522
views
Answer:
Answer: Detect STRs in illumina library
6 weeks ago by
Brian Bushnell
19k
1
vote
0
replies
852
views
Answer:
Answer: What is the correct procedure to generate a consensus bacterial sequence?
6 weeks ago by
Brian Bushnell
19k
0
votes
0
replies
387
views
Answer:
Answer: Lower alignment rate when using collapsed reads
6 weeks ago by
Brian Bushnell
19k
0
votes
0
replies
751
views
Answer:
Answer: Recommendations for extending contigs from denovo assembly to identify SV insert
6 weeks ago by
Brian Bushnell
19k
2
votes
1
reply
2.1k
views
Answer:
Answer: Convert amino acid sequences into nucleotide sequences
6 weeks ago by
Brian Bushnell
19k
0
votes
1
reply
479
views
Answer:
Answer: Viral positive and negative strand with paired sequencing and bowtie
6 weeks ago by
Brian Bushnell
19k
0
votes
0
replies
382
views
Answer:
Answer: How to choose the best tool for variant trio analysis
6 weeks ago by
Brian Bushnell
19k
2
votes
1
reply
569
views
Answer:
Answer: Aligner with statistics included?
updated 6 weeks ago by
Ram
41k • written 6 weeks ago by
Brian Bushnell
19k
1
vote
1
reply
906
views
Answer:
Answer: Building reference dbSNP file for citrus sinensis using 80 WGS samples
6 weeks ago by
Brian Bushnell
19k
0
votes
0
replies
859
views
Answer:
Answer: Which alignment for whole bacterial genomes for phylogenetic tree?
6 weeks ago by
Brian Bushnell
19k
2
votes
0
replies
310
views
Answer:
Answer: Estimating Index Hopping
6 weeks ago by
Brian Bushnell
19k
1
vote
1
reply
527
views
Answer:
Answer: checkstrand tool (from BBMap suite) question
updated 6 weeks ago by
GenoMax
136k • written 6 weeks ago by
Brian Bushnell
19k
1
vote
3
replies
527
views
Answer:
Answer: checkstrand tool (from BBMap suite) question
updated 6 weeks ago by
GenoMax
136k • written 6 weeks ago by
Brian Bushnell
19k
3
votes
1
reply
1.2k
views
Answer:
Answer: Help with clumpify.sh
15 months ago by
Brian Bushnell
19k
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