The Curious Engineer

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sandbox.bio

sandbox.bio

Learn bioinformatics from your browser, no setup required. Everything runs in a sandbox, so you can experiment all you want.

ScienceDev tools / editors / IDEs

’25’26
Posts
73 from 10 Jun 2025 to 9 Oct 2025
Posting
now and then
Kind
project news

2025 2

  1. Burrows-Wheeler Transform (BWT) interactive introduction
  2. Genomic ranges

Undated 71

  1. Bioinformatics tutorials
  2. Interactive articles
  3. Command-line puzzles
  4. Bioinformatics gotchas
  5. sandbox.bio
  6. For Educators
  7. Supported tools
  8. Contribute a tutorial
  9. Embed sandbox.bio
  10. sandbox.bio anniversary week
  11. Data exploration with awk
  12. How to write a Bash script
  13. Bedtools tutorial
  14. BLAST tutorial
  15. Sequence alignment with bowtie2
  16. Efficient sequence analysis with bqtools
  17. Programming with Python Exercises
  18. Terminal Exercises
  19. Section 3.2: Unix shell
  20. Sections 3.3 and 3.4: Data Retrieval
  21. Section 3.5: Data Extraction
  22. Section 3.6: Task Repetition
  23. Section 3.7: XML Processing
  24. Section 3.8: Text Retrieval
  25. Chapter 4: Text Processing
  26. Chapter 5: Semantic Processing
  27. Debugging Puzzles
  28. Variant calling
  29. DNA sequencing QC
  30. Pattern searching in FASTQ files with fqgrep
  31. Basics of the Unix command line interface
  32. Manipulating files and directories
  33. Manipulating data
  34. IGV tutorial
  35. K-mer counting with Jellyfish
  36. JSON wrangling with jq
  37. Intro to Makefiles
  38. Aligning genomes with MUMmer
  39. Introduction to Nextflow
  40. BAM parsing with samtools
  41. Wrangle FASTA and FASTQ with SeqKit
  42. Building trees with SKA
  43. Terminal Basics
  44. Viral Amplicon Sequencing
  45. Viral Phylogenetics
  46. Interactive datavzrd playground
  47. Interactive FastQC playground
  48. Interactive terminal playground
  49. Interactive Python playground
  50. Interactive jq playground
  51. Interactive awk playground
  52. Interactive grep playground
  53. Interactive sed playground
  54. SpliceCraft playground
  55. The BED that could not be indexed
  56. The FASTQ with missing GC
  57. The FASTA that could not be searched
  58. The FASTQ that could not be parsed
  59. The file format detective
  60. The BED that could not be merged
  61. The BAM that could not be queried
  62. The TXT that could not be sorted
  63. The FASTA that could not be filtered
  64. bedtools merge fails on unsorted input
  65. How to remove ^M in vim
  66. How to combine gzipped files
  67. BAI index file older than BAM file
  68. How to concatenate CSVs with headers
  69. M in a CIGAR string is not a match
  70. BAM file is truncated: EOF marker is absent
  71. BED file with spaces instead of tabs