Samtools index numerical result out of range
Websamtools view -s 0.5 -b eg/ERR188273_chrX.bam > eg/ERR188273_chrX_rand.bam Count number of reads. Use samtools idxstats to print stats on a BAM file; this requires an index file which is created by running samtools index. The output of idxstats is a file with four tab-delimited columns: Reference name; Sequence length of reference; Number of ... WebDESCRIPTION. Samtools is a set of utilities that manipulate alignments in the SAM (Sequence Alignment/Map), BAM, and CRAM formats. It converts between the formats, …
Samtools index numerical result out of range
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WebJul 1, 2015 · @user40330 just convert all your variables to Decimal by doing Decimal (var). For example, T=Decimal (4.32*10**19), i=Decimal (input ("Number of iterations ")). If you want a float at the end, just cast using float (someDecimal). – James Jun 30, 2015 at 23:36 @James Thanks! that helped – user40330 Jul 1, 2015 at 11:14 Add a comment WebApr 13, 2024 · The full section method is adopted for blasting construction. Rock emulsion explosive is used in the construction process. The explosive density is 1 g/cm 3, the blasthole diameter is 42 mm, the detonation wave velocity is approximately 5000 m/s, and the longitudinal wave velocity of the rock mass is 4000 m/s.The blasthole depth is in the …
WebBAI: samtools index test.sorted.bam [E::hts_idx_push] Region 536870821..536870933 cannot be stored in a bai index. Try using a csi index with min_shift = 14, n_lvls >= 6 … WebJun 1, 2024 · Index BAM files that have been sorted ( samtools index) Filter alignment records based on BAM flags, mapping quality or location ( samtools view) Since BAM files are binary, they can't be viewed directly using standard Unix file …
WebApr 6, 2024 · samtools index: failed to create index for "file_sort.bam": Numerical result out of range However, never have i encountered any mention of this problem before. It does not occur often - the limit is actually rather high, all human chromosomes, for example, are smaller than this. WebThe cause of the error is that your input file is truncated or /tmp is running out of space. If you can do samtools view -H input.bam without error (reading the header also checks for the magic number at the end of the file) then it's like the that /tmp is filling up. Share Improve this answer Follow edited Dec 14, 2024 at 14:08
Websamtools on Biowulf. Samtools is a suite of applications for processing high throughput sequencing data: samtools is used for working with SAM, BAM, and CRAM files containing aligned sequences. It can also be used to index fasta files. bcftools is used for working with BCF2, VCF, and gVCF files containing variant calls. the aarhus modelWebApr 7, 2024 · samtools index: failed to create index for "***.bam": Numerical result out of range 通过检测samtools版本发现 samtools --version 检测版本 进而通过查阅发现其他策略 … the aare riverhttp://quinlanlab.org/tutorials/samtools/samtools.html the aarhusWebJun 1, 2024 · Try using a csi index with min_shift = 14, n_lvls >= 6 samtools index: failed to create index for "xxxxxx.bam": Numerical result out of range. GATK 步骤 报错信息：. #因 … the aa reviewshttp://quinlanlab.org/tutorials/samtools/samtools.html the aari assistant is currently not availableWebJun 17, 2024 · Index BAM files that have been sorted (samtools index) Filter alignment records based on BAM flags , mapping quality or location ( samtools view ) Since BAM … the aarhus birth cohort biobankWebSep 2, 2024 · This is the length of a soft-clip, both left and right end. It may be combined with qlen (qlen-sclen) to obtain the number of bases in the query sequence that have been aligned to the genome ie it provides a way to compare local-alignment vs global-alignment length. (PR#1441 and PR/samtools#1661, fixes #1436. the aarhus school of business